Citrus Sinensis ID: 041861

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70---
Protein Sequence
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPDGHRKSEYQEEK
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHcccccHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHccccHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHcc
Coil and Loop (DISEMBL)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSmqsatyssDVWFHYCNlasevppdghrkseyqeek
Flexible Loop (DISEMBL)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLAsevppdghrkseyqeek
Low Complexity Region (SEG)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPDGHRKSEYQEEK
Disordered region (IsUnstruct)
**RLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA*****************
Disordered Region (DISOPRED)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPDGHRK**YQ***
Disordered Region (DISEMBL)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPD***********
Disordered Region (DISPRO)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPDGHRKSEYQEEK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPDGHRKSEYQEEK
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	73	2.2.26 [Sep-21-2011]
Q4KLU2	641	Pre-mRNA-processing facto	N/A	no	0.821	0.093	0.343	9e-05
Q7KRW8	1066	Pre-mRNA-processing facto	yes	no	0.684	0.046	0.345	0.0009

>sp|Q4KLU2|PRP39_XENLA Pre-mRNA-processing factor 39 OS=Xenopus laevis GN=prpf39 PE=2 SV=1

 Score = 45.4 bits (106), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 7/67 (10%)

Query: 3   RLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS 57
           R  +++FLA +  CYGYW+K          +    EV+ + +Q+ T S D+W HY N   
Sbjct: 90  RKAFDAFLAHYPYCYGYWKKYADLEKKNNNILEADEVYRRGIQAITLSVDLWMHYLNFLK 149

Query: 58  EV--PPD 62
           E   P D
Sbjct: 150 ETLDPAD 156

Involved in pre-mRNA splicing.
Xenopus laevis (taxid: 8355)

>sp|Q7KRW8|PRP39_DROME Pre-mRNA-processing factor 39 OS=Drosophila melanogaster GN=CG1646 PE=1 SV=1

 Score = 42.4 bits (98), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 5/55 (9%)

Query: 3   RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHY 52
           R  Y++FL+ +  CYGYWRK         +     +VFE+ +++   S D+W HY
Sbjct: 399 REAYDTFLSHYPYCYGYWRKYADYEKRKGIKANCYKVFERGLEAIPLSVDLWIHY 453

Involved in pre-mRNA splicing.

Drosophila melanogaster (taxid: 7227)

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	73
297843218	1328	hypothetical protein ARALYDRAFT_333729 [	0.753	0.041	0.516	4e-11
147795953	826	hypothetical protein VITISV_027789 [Viti	0.753	0.066	0.516	1e-10
297744213	190	unnamed protein product [Vitis vinifera]	0.890	0.342	0.472	2e-10
356505060	828	PREDICTED: pre-mRNA-processing factor 39	0.753	0.066	0.516	2e-10
18379230	768	pre-mRNA-processing factor 39 [Arabidops	0.753	0.071	0.5	3e-10
356570672	828	PREDICTED: pre-mRNA-processing factor 39	0.753	0.066	0.516	3e-10
225437987	832	PREDICTED: pre-mRNA-processing factor 39	0.753	0.066	0.516	3e-10
255557433	395	Pre-mRNA-processing protein prp39, putat	0.876	0.162	0.486	3e-10
334182285	823	pre-mRNA-processing factor 39 [Arabidops	0.753	0.066	0.5	3e-10
3142300	1345	Contains similarity to pre-mRNA processi	0.753	0.040	0.5	4e-10

>gi|297843218|ref|XP_002889490.1| hypothetical protein ARALYDRAFT_333729 [Arabidopsis lyrata subsp. lyrata] gi|297335332|gb|EFH65749.1| hypothetical protein ARALYDRAFT_333729 [Arabidopsis lyrata subsp. lyrata]

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++Q  TYS D+W HYC  A
Sbjct: 121 IRKVYDAFLAEFPLCYGYWKKFADHEARVGAMDKVVEVYERAVQGVTYSVDIWLHYCTFA 180

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147795953|emb|CAN60862.1| hypothetical protein VITISV_027789 [Vitis vinifera]

 Score = 70.5 bits (171), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++Q  TYS D+W HYC  A
Sbjct: 215 IRRVYDAFLAEFPLCYGYWKKYADHEARLGSIEKVVEVYERAVQGVTYSVDIWLHYCIFA 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744213|emb|CBI37183.3| unnamed protein product [Vitis vinifera]

 Score = 70.1 bits (170), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/72 (47%), Positives = 46/72 (63%), Gaps = 7/72 (9%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++Q  TYS D+W HYC  A
Sbjct: 116 IRRVYDAFLAEFPLCYGYWKKYADHEARLGSIEKVVEVYERAVQGVTYSVDIWLHYCIFA 175

Query: 57  SEV--PPDGHRK 66
                 PD  R+
Sbjct: 176 ISTYGDPDTIRR 187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505060|ref|XP_003521310.1| PREDICTED: pre-mRNA-processing factor 39-like [Glycine max]

 Score = 69.7 bits (169), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++Q  TYS D+W HYC  A
Sbjct: 194 IRRVYDAFLAEFPLCYGYWKKYADHEARLGSIDKVVEVYERAVQGVTYSVDMWLHYCIFA 253

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18379230|ref|NP_563700.1| pre-mRNA-processing factor 39 [Arabidopsis thaliana] gi|15810565|gb|AAL07170.1| unknown protein [Arabidopsis thaliana] gi|20259567|gb|AAM14126.1| unknown protein [Arabidopsis thaliana] gi|21593463|gb|AAM65430.1| unknown [Arabidopsis thaliana] gi|332189531|gb|AEE27652.1| pre-mRNA-processing factor 39 [Arabidopsis thaliana]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 41/60 (68%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++   TYS D+W HYC  A
Sbjct: 121 IRKVYDAFLAEFPLCYGYWKKFADHEARVGAMDKVVEVYERAVLGVTYSVDIWLHYCTFA 180

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570672|ref|XP_003553509.1| PREDICTED: pre-mRNA-processing factor 39-like [Glycine max]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++Q  TYS D+W HYC  A
Sbjct: 193 IRRVYDAFLAEFPLCYGYWKKYADHEARLGSIDKVVEVYERAVQGVTYSVDMWLHYCIFA 252

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225437987|ref|XP_002272685.1| PREDICTED: pre-mRNA-processing factor 39-like [Vitis vinifera]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++Q  TYS D+W HYC  A
Sbjct: 194 IRRVYDAFLAEFPLCYGYWKKYADHEARLGSIEKVVEVYERAVQGVTYSVDIWLHYCIFA 253

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557433|ref|XP_002519747.1| Pre-mRNA-processing protein prp39, putative [Ricinus communis] gi|223541164|gb|EEF42720.1| Pre-mRNA-processing protein prp39, putative [Ricinus communis]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 35/72 (48%), Positives = 48/72 (66%), Gaps = 8/72 (11%)

Query: 2   IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IRLVY+SFL++F LCYGYWRK        + + +VV+VFE+++ SATYS D+W  YC+  
Sbjct: 53  IRLVYDSFLSEFPLCYGYWRKYVNHNIRLSTIDKVVQVFERAVLSATYSVDLWVDYCDFG 112

Query: 57  S---EVPPDGHR 65
           +   E P D  R
Sbjct: 113 TLSFEDPSDVRR 124

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334182285|ref|NP_001184905.1| pre-mRNA-processing factor 39 [Arabidopsis thaliana] gi|332189533|gb|AEE27654.1| pre-mRNA-processing factor 39 [Arabidopsis thaliana]

 Score = 68.9 bits (167), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 41/60 (68%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++   TYS D+W HYC  A
Sbjct: 121 IRKVYDAFLAEFPLCYGYWKKFADHEARVGAMDKVVEVYERAVLGVTYSVDIWLHYCTFA 180

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3142300|gb|AAC16751.1| Contains similarity to pre-mRNA processing protein PRP39 gb|L29224 from S. cerevisiae. ESTs gb|R64908 and gb|T88158, gb|N38703 and gb|AA651043 come from this gene [Arabidopsis thaliana]

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 41/60 (68%), Gaps = 5/60 (8%)

Query: 2   IRLVYNSFLADFHLCYGYWRK-----ACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLA 56
           IR VY++FLA+F LCYGYW+K     A    + +VVEV+E+++   TYS D+W HYC  A
Sbjct: 121 IRKVYDAFLAEFPLCYGYWKKFADHEARVGAMDKVVEVYERAVLGVTYSVDIWLHYCTFA 180

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	73
TAIR|locus:2170453	1036	PRP39-2 [Arabidopsis thaliana	0.917	0.064	0.459	3.8e-09
DICTYBASE|DDB_G0283307	699	prpf39 "pre-mRNA processing fa	0.712	0.074	0.368	2.1e-05
ASPGD|ASPL0000046692	588	AN1635 [Emericella nidulans (t	0.835	0.103	0.348	0.00015
FB|FBgn0039600	1066	CG1646 [Drosophila melanogaste	0.684	0.046	0.345	0.00041

TAIR|locus:2170453 PRP39-2 [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 3.8e-09, P = 3.8e-09
 Identities = 34/74 (45%), Positives = 42/74 (56%)

Query:     4 LVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS 57
             LVY++FL +F LC+GYWRK        C L    VEVFE+++Q+ATYS  VW  YC  A 
Sbjct:    69 LVYDAFLLEFPLCHGYWRKYAYHKIKLCTL-EDAVEVFERAVQAATYSVAVWLDYCAFAV 127

Query:    58 EVPPDGHRKSEYQE 71
                 D H  S   E
Sbjct:   128 AAYEDPHDVSRLFE 141

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006396 "RNA processing" evidence=IEA

DICTYBASE|DDB_G0283307 prpf39 "pre-mRNA processing factor 39" [Dictyostelium discoideum (taxid:44689)]

 Score = 111 (44.1 bits), Expect = 2.1e-05, P = 2.1e-05
 Identities = 21/57 (36%), Positives = 35/57 (61%)

Query:     2 IRLVYNSFLADFHLCYGYWRKACCALL-----TRVVEVFEQSMQSATYSSDVWFHYC 53
             IR VY+ FL +F LC+ YW++           T+ +E+FE+++ S  +S D+W +YC
Sbjct:    57 IRKVYSEFLNEFPLCFLYWKRFADHEYAHNNTTQSIEIFEKAVSSIPHSVDIWLNYC 113

GO:0006397 "mRNA processing" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

ASPGD|ASPL0000046692 AN1635 [Emericella nidulans (taxid:162425)]

 Score = 102 (41.0 bits), Expect = 0.00015, P = 0.00015
 Identities = 23/66 (34%), Positives = 35/66 (53%)

Query:     2 IRLVYNSFLADFHLCYGYWRKACCALL----TRVVE-VFEQSMQSATYSSDVWFHYCNLA 56
             +R VY+ FLA F L +GYW+K          T   + V+E+ + S + S D+W +YC   
Sbjct:    59 VRNVYDRFLAKFPLLFGYWKKYADLEFSITGTEAADMVYERGVASISSSVDLWTNYCTFK 118

Query:    57 SEVPPD 62
             +E   D
Sbjct:   119 AETSHD 124

GO:0006396 "RNA processing" evidence=IEA

GO:0005685 "U1 snRNP" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

FB|FBgn0039600 CG1646 [Drosophila melanogaster (taxid:7227)]

 Score = 101 (40.6 bits), Expect = 0.00041, P = 0.00041
 Identities = 19/55 (34%), Positives = 30/55 (54%)

Query:     3 RLVYNSFLADFHLCYGYWRKACC-----ALLTRVVEVFEQSMQSATYSSDVWFHY 52
             R  Y++FL+ +  CYGYWRK         +     +VFE+ +++   S D+W HY
Sbjct:   399 REAYDTFLSHYPYCYGYWRKYADYEKRKGIKANCYKVFERGLEAIPLSVDLWIHY 453


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.325   0.134   0.447    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0       73        73   0.00091  102 3  11 22  0.45    28
                                                     29  0.45    29


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  543 (58 KB)
  Total size of DFA:  118 KB (2078 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  8.55u 0.11s 8.66t   Elapsed:  00:00:00
  Total cpu time:  8.55u 0.11s 8.66t   Elapsed:  00:00:00
  Start:  Sat May 11 08:42:56 2013   End:  Sat May 11 08:42:56 2013

GO:0005685 "U1 snRNP" evidence=ISS

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

GO:0005634 "nucleus" evidence=IC

GO:0000381 "regulation of alternative mRNA splicing, via spliceosome" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh1_pg.C_scaffold_1000294 annotation not avaliable (1328 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

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

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	73
KOG1258	577	consensus mRNA processing protein [RNA processing	99.91
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	99.23
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.0
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	98.88
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.74
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.7
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.32
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	98.19
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.01
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	97.6
PF13428	44	TPR_14: Tetratricopeptide repeat	97.4
PF02184	32	HAT: HAT (Half-A-TPR) repeat; InterPro: IPR003107	97.19
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.14
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.1
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.95
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	96.91
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.91
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.87
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.8
KOG0495	913	consensus HAT repeat protein [RNA processing and m	96.78
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	96.75
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.65
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	96.64
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	96.56
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.48
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	96.43
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	96.4
KOG1258	577	consensus mRNA processing protein [RNA processing	96.36
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	96.3
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.19
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.17
PRK15359	144	type III secretion system chaperone protein SscB;	96.12
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	96.02
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	95.92
PF13371	73	TPR_9: Tetratricopeptide repeat	95.91
PF13371	73	TPR_9: Tetratricopeptide repeat	95.76
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	95.57
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	95.53
PRK12370	553	invasion protein regulator; Provisional	95.28
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	95.22
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	95.03
COG5191	435	Uncharacterized conserved protein, contains HAT (H	95.01
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	94.97
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	94.54
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.53
COG5191	435	Uncharacterized conserved protein, contains HAT (H	94.46
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	94.21
PRK10803	263	tol-pal system protein YbgF; Provisional	94.06
PRK11189	296	lipoprotein NlpI; Provisional	93.99
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	93.95
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	93.74
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.45
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	93.24
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	93.19
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	93.11
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	92.9
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	92.3
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	92.15
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	92.08
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	91.84
PRK10803	263	tol-pal system protein YbgF; Provisional	91.83
PRK12370	553	invasion protein regulator; Provisional	91.81
PRK11788	389	tetratricopeptide repeat protein; Provisional	91.7
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	91.44
PRK15359	144	type III secretion system chaperone protein SscB;	90.83
PF13431	34	TPR_17: Tetratricopeptide repeat	90.74
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	90.6
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	90.58
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	90.52
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	89.42
TIGR02552	135	LcrH_SycD type III secretion low calcium response	89.14
PRK11788	389	tetratricopeptide repeat protein; Provisional	88.85
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	88.78
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	88.65
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	88.47
PRK10370	198	formate-dependent nitrite reductase complex subuni	88.45
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	88.32
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	88.17
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	87.34
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	86.4
PF13431	34	TPR_17: Tetratricopeptide repeat	85.37
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	85.35
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.26
COG4508	161	Dimeric dUTPase [Carbohydrate transport and metabo	85.18
PRK11189	296	lipoprotein NlpI; Provisional	84.49
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	84.16
PF03704	146	BTAD: Bacterial transcriptional activator domain;	83.79
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	82.99
PF03704	146	BTAD: Bacterial transcriptional activator domain;	82.42
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	82.09
PF13512	142	TPR_18: Tetratricopeptide repeat	81.65
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	81.56
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	80.75
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.42
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	80.35

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=99.91  E-value=1.8e-24  Score=169.33  Aligned_cols=70  Identities=33%  Similarity=0.676  Sum_probs=67.9

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--Ccchhhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--PPDGHRKSEYQE   71 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--~~~~~~~lf~~~   71 (73)
                      +|.+|+.||.+||+|+|||+|||     +|+.+.|.+||||||+++|+|+|||++||+|.+.+  ||+.+|++||+-
T Consensus        64 ~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A  140 (577)
T KOG1258|consen   64 LREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLKNNNGDPETLRDLFERA  140 (577)
T ss_pred             HHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHH
Confidence            79999999999999999999999     99999999999999999999999999999999999  999999999974

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

Probab=99.23  E-value=2.3e-11  Score=87.22  Aligned_cols=70  Identities=16%  Similarity=0.245  Sum_probs=60.4

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      +|.+|.+.+..-+.+++.|.++|      .++.+.|.+|||+|++.+|.+.++|..|++|++.. |.+.+|.||||.
T Consensus        20 aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~   96 (280)
T PF05843_consen   20 ARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIKLNDINNARALFERA   96 (280)
T ss_dssp             HHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            58999999977788999999999      35566699999999999999999999999999998 999999999984

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.

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

Probab=99.00  E-value=1e-09  Score=86.72  Aligned_cols=68  Identities=15%  Similarity=0.292  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH---------HHHHHHHHHhhc--Ccchhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD---------VWFHYCNLASEV--PPDGHRK   66 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd---------LW~~Yl~f~~~~--~~~~~~~   66 (73)
                      +-.|+..++..|+.|+-|.+|.     .|+.++..+|||||+.++|+..+         ||++|+-|....  |+++.|.
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~  387 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ  387 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            4579999999999999999999     78999999999999999999666         999999998877  9999999


Q ss_pred             hhhh
Q 041861           67 SEYQ   70 (73)
Q Consensus        67 lf~~   70 (73)
                      ++..
T Consensus       388 vyq~  391 (677)
T KOG1915|consen  388 VYQA  391 (677)
T ss_pred             HHHH
Confidence            9854

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=98.88  E-value=4e-09  Score=51.75  Aligned_cols=32  Identities=16%  Similarity=0.540  Sum_probs=30.0

Q ss_pred             cchHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861           26 ALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus        26 ~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      |+.+.|.++|+||+..+|.+.++|+.|+.|.+
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~e~   32 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEFEE   32 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHHHh
Confidence            57899999999999999999999999999976

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

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

Probab=98.74  E-value=3.4e-08  Score=70.86  Aligned_cols=71  Identities=18%  Similarity=0.333  Sum_probs=62.3

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH---HHHHHHHHHHhhc-Ccchhhhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS---DVWFHYCNLASEV-PPDGHRKSEYQEE   72 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv---dLW~~Yl~f~~~~-~~~~~~~lf~~~~   72 (73)
                      ++++||.-|..||.-.+||..|+     +++.+.|+.+||||+..+|..-   .||..|++|.... |.+.++.|..|..
T Consensus        55 A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~  134 (280)
T PF05843_consen   55 ARKIFERGLKKFPSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAE  134 (280)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            68899999999999999999999     8999999999999999988744   5999999999998 9999999887753

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.

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

Probab=98.70  E-value=3.9e-08  Score=78.30  Aligned_cols=58  Identities=17%  Similarity=0.347  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhcC
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVP   60 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~~   60 (73)
                      +|..||+++..||.--.+|+.|+     -.+.++++++|.||+..+ +++|||.-||.++.+++
T Consensus        38 ~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv-LnlDLW~lYl~YVR~~~  100 (656)
T KOG1914|consen   38 VRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV-LNLDLWKLYLSYVRETK  100 (656)
T ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-hhHhHHHHHHHHHHHHc
Confidence            68999999999999999999999     689999999999999997 67999999999999993

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

Probab=98.32  E-value=1.6e-06  Score=68.98  Aligned_cols=68  Identities=16%  Similarity=0.277  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      |+-|+.-+.+.-+.-+-|.|||     .+++.+|+.|||||+..=..++-||+.|+.+.+.+ .++.+|.|+.|
T Consensus        59 RkefEd~irrnR~~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dR  132 (677)
T KOG1915|consen   59 RKEFEDQIRRNRLNMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDR  132 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHH
Confidence            6789999999999999999999     88999999999999997666888999999999888 88888888765

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=98.19  E-value=3e-06  Score=67.18  Aligned_cols=61  Identities=18%  Similarity=0.307  Sum_probs=55.6

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhcCcch
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEVPPDG   63 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~~~~~   63 (73)
                      +|++|++|+.-||+.-.-|..|.     -++...++.+|.||+... +++|||.-||.+++..+++.
T Consensus        61 ~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~-l~ldLW~lYl~YIRr~n~~~  126 (660)
T COG5107          61 EREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS-LNLDLWMLYLEYIRRVNNLI  126 (660)
T ss_pred             HHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh-ccHhHHHHHHHHHHhhCccc
Confidence            68999999999999999999999     478999999999999985 78999999999999985543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.01  E-value=1.9e-05  Score=64.37  Aligned_cols=69  Identities=16%  Similarity=0.267  Sum_probs=57.9

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-------------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-------------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKS   67 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-------------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~l   67 (73)
                      ++..|+++|+.||--|..|..|.             ..-.+.....||||+.-.--..-+|.+||+|++.. +.-.+|..
T Consensus        45 ~~~lYERal~~lp~sykiW~~YL~~R~~~vk~~~~T~~~~~~vn~c~er~lv~mHkmpRIwl~Ylq~l~~Q~~iT~tR~t  124 (835)
T KOG2047|consen   45 RNLLYERALKELPGSYKIWYDYLKARRAQVKHLCPTDPAYESVNNCFERCLVFMHKMPRIWLDYLQFLIKQGLITRTRRT  124 (835)
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhcchHHHHHHH
Confidence            46789999999999999999999             23467788899999995555557999999999988 88888887


Q ss_pred             hhh
Q 041861           68 EYQ   70 (73)
Q Consensus        68 f~~   70 (73)
                      |.+
T Consensus       125 fdr  127 (835)
T KOG2047|consen  125 FDR  127 (835)
T ss_pred             HHH
Confidence            765

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=97.60  E-value=0.00038  Score=50.98  Aligned_cols=67  Identities=9%  Similarity=0.027  Sum_probs=59.7

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc----Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV----PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~----~~~~~~~lf~~   70 (73)
                      .+|++-|+..|-...-|..|.     ..+.++..+-+++++...|.|..||..||+|....    ..+.++.+|.+
T Consensus        52 silerAL~~np~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~  127 (321)
T PF08424_consen   52 SILERALKHNPDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPGSPELWREYLDFRQSNFASFTVSDVRDVYEK  127 (321)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCcHHHHHHHHHH
Confidence            368899999999999999998     66888899999999999999999999999999986    77888887765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.40  E-value=0.00046  Score=36.75  Aligned_cols=34  Identities=6%  Similarity=0.234  Sum_probs=30.3

Q ss_pred             HHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHH
Q 041861           20 WRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYC   53 (73)
Q Consensus        20 Wkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl   53 (73)
                      |..+|     .|+.++|+++|+++|+..|.+.+.|..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La   42 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhh
Confidence            55556     89999999999999999999999998764

>PF02184 HAT: HAT (Half-A-TPR) repeat; InterPro: IPR003107 The HAT (Half A TPR) repeat has a repetitive pattern characterised by three aromatic residues with a conserved spacing

Probab=97.19  E-value=0.00059  Score=35.77  Aligned_cols=30  Identities=13%  Similarity=0.397  Sum_probs=26.2

Q ss_pred             chHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861           27 LLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus        27 ~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      ..|+|+.||||.|.--| ++..|+.|+.|..
T Consensus         2 E~dRAR~IyeR~v~~hp-~~k~WikyAkFEe   31 (32)
T PF02184_consen    2 EFDRARSIYERFVLVHP-EVKNWIKYAKFEE   31 (32)
T ss_pred             hHHHHHHHHHHHHHhCC-CchHHHHHHHhhc
Confidence            46899999999999765 6999999999864

They are structurally and sequentially similar to TPRs (tetratricopeptide repeats), though they lack the highly conserved alanine and glycine residues found in TPRs. The number of HAT repeats found in different proteins varies between 9 and 12. HAT-repeat-containing proteins appear to be components of macromolecular complexes that are required for RNA processing []. The repeats may be involved in protein-protein interactions. The HAT motif has striking structural similarities to HEAT repeats (IPR000357 from INTERPRO), being of a similar length and consisting of two short helices connected by a loop domain, as in HEAT repeats.; GO: 0006396 RNA processing, 0005622 intracellular

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

Probab=97.14  E-value=0.0011  Score=36.88  Aligned_cols=42  Identities=7%  Similarity=0.021  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccC
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATY   44 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~   44 (73)
                      ...|++++..+|-....|..++     .|+.++|++.|++++..-|.
T Consensus        17 ~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen   17 IAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            3455666666666666666665     56666666666666665554

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

Probab=97.10  E-value=0.0017  Score=53.55  Aligned_cols=66  Identities=14%  Similarity=0.132  Sum_probs=57.8

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..++-|..||-|...|--.-     .++++.|++.|-.|++.+|+|+-||+.-....... ++-+.|.+++|
T Consensus       673 llEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildr  744 (913)
T KOG0495|consen  673 LLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDR  744 (913)
T ss_pred             HHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHH
Confidence            44888999999999999887     89999999999999999999999999877666655 88888888776

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

Probab=96.95  E-value=0.0023  Score=55.92  Aligned_cols=68  Identities=10%  Similarity=0.261  Sum_probs=59.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc-----HHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS-----SDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S-----vdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      .-+++++.--|--.=-|.+|.     ++.+++|++|.|||+.++-+-     +.+|+.|++..... +.+...++|||-
T Consensus      1445 eDferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA 1523 (1710)
T KOG1070|consen 1445 EDFERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERA 1523 (1710)
T ss_pred             HHHHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH
Confidence            357889999999999999999     899999999999999988442     33999999999988 788999999984

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=96.91  E-value=0.0067  Score=44.45  Aligned_cols=67  Identities=13%  Similarity=0.140  Sum_probs=56.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----h---c---------chHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----C---A---------LLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHR   65 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~---~---------~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~   65 (73)
                      ..+++-+...|---+-|.+|+     +   +         -.+.-..|||||+++-|.|..||..|+.-.... +++.+.
T Consensus         6 ~el~~~v~~~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np~~~~L~l~~l~~~~~~~~~~~l~   85 (321)
T PF08424_consen    6 AELNRRVRENPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNPDSERLLLGYLEEGEKVWDSEKLA   85 (321)
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            468899999999999999999     1   1         146677899999999999999999999999887 777777


Q ss_pred             hhhhh
Q 041861           66 KSEYQ   70 (73)
Q Consensus        66 ~lf~~   70 (73)
                      +-+++
T Consensus        86 ~~we~   90 (321)
T PF08424_consen   86 KKWEE   90 (321)
T ss_pred             HHHHH
Confidence            66654

>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=96.91  E-value=0.0028  Score=35.27  Aligned_cols=44  Identities=7%  Similarity=-0.077  Sum_probs=24.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD   47 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd   47 (73)
                      ..|++.+..+|-.-..+..+|     .|+.++|++++++.+..-|.+.+
T Consensus        12 ~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~   60 (68)
T PF14559_consen   12 ELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPE   60 (68)
T ss_dssp             HHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHH
Confidence            345555666666666665555     55566666666666665555433

...

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=96.87  E-value=0.0031  Score=51.92  Aligned_cols=55  Identities=9%  Similarity=0.230  Sum_probs=47.2

Q ss_pred             HHHHHHHHccchHHHHHHHH---hcc-hHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            5 VYNSFLADFHLCYGYWRKAC---CAL-LTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya---~~~-~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      -|+.-+.|.|+.-..|++|.   .+. ..+...+||||+..+|-|-.||.+||......
T Consensus        15 pfEeEilRnp~svk~W~RYIe~k~~sp~k~~~~lYERal~~lp~sykiW~~YL~~R~~~   73 (835)
T KOG2047|consen   15 PFEEEILRNPFSVKCWLRYIEHKAGSPDKQRNLLYERALKELPGSYKIWYDYLKARRAQ   73 (835)
T ss_pred             chHHHHHcCchhHHHHHHHHHHHccCChHHHHHHHHHHHHHCCCchHHHHHHHHHHHHH
Confidence            48888999999999999999   443 55666799999999999999999999766554

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

Probab=96.80  E-value=0.0045  Score=54.17  Aligned_cols=69  Identities=14%  Similarity=0.126  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----h------------------------------------cchHHHHHHHHHHHhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----C------------------------------------ALLTRVVEVFEQSMQS   41 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~------------------------------------~~~~~a~~V~erav~~   41 (73)
                      -+.|+..+.+|----.-|.+|+     .                                    |+.++.+.+||--|.+
T Consensus      1550 ~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~a 1629 (1710)
T KOG1070|consen 1550 DELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSA 1629 (1710)
T ss_pred             HHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhh
Confidence            3567788888887777899988     2                                    4455555555555555


Q ss_pred             ccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861           42 ATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus        42 ~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      -|--.|||.-|+.-.+.. +++.+|.||+|-
T Consensus      1630 yPKRtDlW~VYid~eik~~~~~~vR~lfeRv 1660 (1710)
T KOG1070|consen 1630 YPKRTDLWSVYIDMEIKHGDIKYVRDLFERV 1660 (1710)
T ss_pred             CccchhHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            555667999999999888 999999999984

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

Probab=96.78  E-value=0.0067  Score=50.24  Aligned_cols=64  Identities=11%  Similarity=0.159  Sum_probs=37.3

Q ss_pred             HHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            8 SFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         8 ~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      +.+..=|-..++|--||     .|+...|+.++.+|+++.|+|-|+|..=......+ ..|+.|.+|.|.
T Consensus       575 kav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llaka  644 (913)
T KOG0495|consen  575 KAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKA  644 (913)
T ss_pred             HHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            33344455555555555     46666666666666666666666666544444444 666666666553

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=96.75  E-value=0.0054  Score=49.05  Aligned_cols=56  Identities=14%  Similarity=0.299  Sum_probs=39.7

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      +.++|.+.|..-|..-+-|.--|      ..|+++|+.++.||++--|.|-.||..|..+..
T Consensus       124 v~ki~~~~l~~Hp~~~dLWI~aA~wefe~n~ni~saRalflrgLR~npdsp~Lw~eyfrmEL  185 (568)
T KOG2396|consen  124 VKKIFAAMLAKHPNNPDLWIYAAKWEFEINLNIESARALFLRGLRFNPDSPKLWKEYFRMEL  185 (568)
T ss_pred             HHHHHHHHHHhCCCCchhHHhhhhhHHhhccchHHHHHHHHHHhhcCCCChHHHHHHHHHHH
Confidence            35677777777777777777666      345777777777777777777777777766554

>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=96.65  E-value=0.021  Score=30.38  Aligned_cols=68  Identities=6%  Similarity=-0.013  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...+++.+...|-....|...+     .++.++|.+.+++++...|...+.|.......... +.+.....+.+
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~   93 (100)
T cd00189          20 LEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEK   93 (100)
T ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            3467778888887777777777     68899999999999998888888888777666555 66666666554

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=96.64  E-value=0.0099  Score=47.60  Aligned_cols=67  Identities=13%  Similarity=0.217  Sum_probs=58.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--~~~~~~~lf~~   70 (73)
                      ..|.+-+.+||---..|-.|+     .++..+.-+||.+++.--|.++|||+.=+.+.-+.  +.+.+|.||-+
T Consensus        92 ~lyr~at~rf~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~wefe~n~ni~saRalflr  165 (568)
T KOG2396|consen   92 FLYRRATNRFNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWEFEINLNIESARALFLR  165 (568)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhHHhhccchHHHHHHHHH
Confidence            468999999999999999998     56699999999999999999999999877777666  78888888754

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=96.56  E-value=0.011  Score=49.32  Aligned_cols=67  Identities=16%  Similarity=0.096  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH--------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--------Ccchhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC--------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--------PPDGHRK   66 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya--------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--------~~~~~~~   66 (73)
                      |.+=..+-.-||+|-.-|++|+        .++...+++.|++|+.. -+||-+|..|++|+...        +-+-.|.
T Consensus       133 ~~ar~~~~~~~pl~~~lWl~Wl~d~~~mt~s~~~~~v~~~~ekal~d-y~~v~iw~e~~~y~~~~~~~~~~~~d~k~~R~  211 (881)
T KOG0128|consen  133 RQARLEMSEIAPLPPHLWLEWLKDELSMTQSEERKEVEELFEKALGD-YNSVPIWEEVVNYLVGFGNVAKKSEDYKKERS  211 (881)
T ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHhhccCcchhHHHHHHHHHhcc-cccchHHHHHHHHHHhccccccccccchhhhH
Confidence            4445667788999999999999        46788899999999997 47999999999999876        3345566


Q ss_pred             hhhh
Q 041861           67 SEYQ   70 (73)
Q Consensus        67 lf~~   70 (73)
                      +|+|
T Consensus       212 vf~r  215 (881)
T KOG0128|consen  212 VFER  215 (881)
T ss_pred             HHHH
Confidence            7765

>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=96.48  E-value=0.014  Score=32.38  Aligned_cols=47  Identities=9%  Similarity=0.029  Sum_probs=41.5

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      .|+.++|++.|++++...|.+.+++..+....... +.++.+.++++.
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            57899999999999999999999999999999888 888888877653

...

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

Probab=96.43  E-value=0.0096  Score=41.55  Aligned_cols=59  Identities=8%  Similarity=0.075  Sum_probs=44.9

Q ss_pred             HccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           12 DFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        12 ~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|--..+|..+|     .|+.++|++.|++|+...|.+.+++..++...+.. +.++.+++.++
T Consensus       141 ~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~  205 (280)
T PF13429_consen  141 AAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKR  205 (280)
T ss_dssp             ---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            4566778999988     79999999999999999999999999999888876 66665555544

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=96.40  E-value=0.0057  Score=29.12  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=21.9

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC   24 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya   24 (73)
                      +|.+|++.+..+|..-..|.+|+
T Consensus         6 ~r~i~e~~l~~~~~~~~~W~~y~   28 (33)
T smart00386        6 ARKIYERALEKFPKSVELWLKYA   28 (33)
T ss_pred             HHHHHHHHHHHCCCChHHHHHHH
Confidence            68999999999999999999997

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.36  E-value=0.022  Score=45.94  Aligned_cols=69  Identities=12%  Similarity=0.123  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHccchHHHHHHHH------hcchHHHHHHHHHHHhhccC---cHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATY---SSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya------~~~~~~a~~V~erav~~~p~---SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      -++|++=+.-+|+--.-|..|.      .|+.+.....||||+..+..   |..||-.|+.|.-.. +...+-.+++|.
T Consensus        99 ~~Vfergv~aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRi  177 (577)
T KOG1258|consen   99 VKVFERGVQAIPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERI  177 (577)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            5789999999999999999999      67788899999999998765   788999999999665 777777777764

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

Probab=96.35  E-value=0.0092  Score=33.05  Aligned_cols=47  Identities=11%  Similarity=0.173  Sum_probs=41.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      .|+.++|+++|++++...|.+.+.|..+....... +.++....+++.
T Consensus        10 ~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen   10 QGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             CTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            78999999999999999999999999988888777 888888887764

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=96.30  E-value=0.055  Score=34.37  Aligned_cols=67  Identities=12%  Similarity=0.042  Sum_probs=47.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..+++.+...|.....|...+     .|+.++|++.|++++..-|...+.|.++....... +.++....+++
T Consensus        52 ~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  124 (234)
T TIGR02521        52 ENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQ  124 (234)
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            456677777777777777666     67788888888888887777777777776666555 66666555554

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.

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

Probab=96.19  E-value=0.06  Score=33.10  Aligned_cols=66  Identities=11%  Similarity=0.152  Sum_probs=52.3

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..++..+...|--...|...+     .++.++|.+++++++..-|.+.+.|.......... +.+.....+.
T Consensus        38 ~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~  109 (135)
T TIGR02552        38 KLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALD  109 (135)
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            467888888999889998888     78899999999999999899999887766555544 6666655554

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=96.17  E-value=0.057  Score=36.99  Aligned_cols=67  Identities=6%  Similarity=0.019  Sum_probs=56.5

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHH-hhc-C--cchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLA-SEV-P--PDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~-~~~-~--~~~~~~lf~~   70 (73)
                      ..+++-|..-|-....|...+     .|+.+.|++.|+++++--|...++|.+|...+ ... +  .++.+.++.+
T Consensus        60 ~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~  135 (198)
T PRK10370         60 QALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDK  135 (198)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            467888999999999999988     89999999999999999999999999999854 333 2  4667766654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.12  E-value=0.049  Score=35.30  Aligned_cols=67  Identities=4%  Similarity=0.019  Sum_probs=54.7

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|+..+..-|....+|...+     .|..++|+..|++++.--|...+.|.+-....... +.++....+.+
T Consensus        45 ~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~  117 (144)
T PRK15359         45 IDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQT  117 (144)
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            568888899999999999988     78999999999999998899899888776655555 66666665544

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

Probab=96.02  E-value=0.055  Score=41.00  Aligned_cols=69  Identities=9%  Similarity=-0.059  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      ...|++.+..-|-....|..++     .|+.++|.+.|+++++.-|...+++.++....... ++++.+.++++.
T Consensus       823 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       823 LEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             HHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3456777777788888887777     78899999999999998888888888888888877 888888887764

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.

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

Probab=95.92  E-value=0.025  Score=39.48  Aligned_cols=68  Identities=12%  Similarity=0.111  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      +...+.....-|-.-.+|..++     +|+.++|.+.|++++..-|.......+|...+... ..++...++.+
T Consensus       200 ~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~  273 (280)
T PF13429_consen  200 REALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQ  273 (280)
T ss_dssp             HHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT--------------
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3455566666677777787777     78899999999999988888888888888888877 77777776655

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.91  E-value=0.037  Score=30.96  Aligned_cols=42  Identities=12%  Similarity=0.041  Sum_probs=23.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS   45 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S   45 (73)
                      .++++.+...|-...-|..++     .|+.++|.+.+++++..-|.+
T Consensus        16 ~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~   62 (73)
T PF13371_consen   16 EVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDD   62 (73)
T ss_pred             HHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence            445555555555555555555     555555555555555555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.76  E-value=0.028  Score=31.49  Aligned_cols=46  Identities=9%  Similarity=0.167  Sum_probs=39.8

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .++.++|.+++++++.--|.++.+|..+....... +.+.....+++
T Consensus         8 ~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~   54 (73)
T PF13371_consen    8 QEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLER   54 (73)
T ss_pred             CCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHH
Confidence            67899999999999999999999999998888877 77777666655

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=95.57  E-value=0.16  Score=32.19  Aligned_cols=47  Identities=6%  Similarity=-0.118  Sum_probs=23.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWF   50 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~   50 (73)
                      ..+++.+...|-....|...+     .|+.++|.+.+++++...|.+.+.|.
T Consensus       156 ~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  207 (234)
T TIGR02521       156 KYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLW  207 (234)
T ss_pred             HHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            344455555555444444444     45555555555555555444444443

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=95.53  E-value=0.095  Score=40.78  Aligned_cols=68  Identities=10%  Similarity=-0.059  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.|...|-....|...+     +|+.++|+..|++++...|.+.+.|..+....... +.++....|.+
T Consensus       419 ~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~  492 (615)
T TIGR00990       419 GKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDT  492 (615)
T ss_pred             HHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            3567788888888777777777     68888888888888888888888888776666555 55655555443

>PRK12370 invasion protein regulator; Provisional

Probab=95.28  E-value=0.13  Score=39.89  Aligned_cols=67  Identities=9%  Similarity=-0.183  Sum_probs=41.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..+++.++.-|-....|...+     .|+.++|++.|+++++--|.+.+.|..+....... ++++....+++
T Consensus       325 ~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        325 EHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            345666666676666666655     56677777777777776677777666555444444 55555554443

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

Probab=95.22  E-value=0.17  Score=38.43  Aligned_cols=67  Identities=6%  Similarity=-0.001  Sum_probs=37.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.+...|-....|...+     .|+.++|.++|++++...|.+.+.|.......... +.++...++++
T Consensus       622 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  694 (899)
T TIGR02917       622 SSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKS  694 (899)
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            345555555555555555555     56666666666666666666666666555555444 44444444433

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.

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

Probab=95.03  E-value=0.082  Score=42.98  Aligned_cols=65  Identities=14%  Similarity=0.128  Sum_probs=57.7

Q ss_pred             HHHHHHccchHHHHHHHH----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            7 NSFLADFHLCYGYWRKAC----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         7 ~~fL~~fPl~~~YWkkya----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      ++-++..|+--.-|--..    ..-+++++++||+-+..+|.|---|..|+.-.... |=+.++.||.|-
T Consensus        10 ~~rie~nP~di~sw~~lire~qt~~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RC   79 (656)
T KOG1914|consen   10 RERIEENPYDIDSWSQLIREAQTQPIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRC   79 (656)
T ss_pred             HHHHhcCCccHHHHHHHHHHHccCCHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            445678899999998877    55799999999999999999999999999988877 999999999873

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=95.01  E-value=0.025  Score=43.67  Aligned_cols=56  Identities=16%  Similarity=0.436  Sum_probs=46.6

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      +.++|.+.|.+-|+..+-|.--+      .+|++.++.+|.+|++--|-|.-+|..|..+..
T Consensus       126 ~~nI~~~~l~khP~nvdlWI~~c~~e~~~~ani~s~Ra~f~~glR~N~~~p~iw~eyfr~El  187 (435)
T COG5191         126 MKNIFAECLTKHPLNVDLWIYCCAFELFEIANIESSRAMFLKGLRMNSRSPRIWIEYFRMEL  187 (435)
T ss_pred             HHHHHHHHHhcCCCCceeeeeeccchhhhhccHHHHHHHHHhhhccCCCCchHHHHHHHHHH
Confidence            46788889999999999997534      789999999999999987888889999876654

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=94.97  E-value=0.039  Score=46.25  Aligned_cols=57  Identities=18%  Similarity=0.259  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      -..+++.+.+.|+-..-|++|.      ++-.+.+..++-|++++.|.+.|||..|+-.+.++
T Consensus       332 ~l~~eR~~~E~~~~~~~wi~y~~~~d~eLkv~~~~~~~~~ra~R~cp~tgdL~~rallAleR~  394 (881)
T KOG0128|consen  332 QLIEERAVAEMVLDRALWIGYGVYLDTELKVPQRGVSVHPRAVRSCPWTGDLWKRALLALERN  394 (881)
T ss_pred             HHHHHHHHHhccccHHHHhhhhhhcccccccccccccccchhhcCCchHHHHHHHHHHHHHhc
Confidence            3568899999999999999998      67788889999999999999999999999666655

>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=94.54  E-value=0.27  Score=38.32  Aligned_cols=66  Identities=11%  Similarity=0.021  Sum_probs=41.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.|...|-+...|...+     .|+.++|++.|++++..-|...++|.+........ +.++....|+
T Consensus       352 ~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~  423 (615)
T TIGR00990       352 ADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQ  423 (615)
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            456666777777777777666     56777777777777776677777776655544433 4444444443

>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=94.53  E-value=0.17  Score=27.98  Aligned_cols=53  Identities=8%  Similarity=0.132  Sum_probs=40.0

Q ss_pred             HHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--Ccchhhhhhhh
Q 041861           18 GYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--PPDGHRKSEYQ   70 (73)
Q Consensus        18 ~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--~~~~~~~lf~~   70 (73)
                      ..|...+     .++.++|++.|++|+.--|.+.++|.+........  ++++..+-+++
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            3566777     79999999999999999999999998876655544  25555555443

...

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=94.46  E-value=0.024  Score=43.81  Aligned_cols=61  Identities=11%  Similarity=0.255  Sum_probs=52.2

Q ss_pred             HHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--Ccchhhhhhhh
Q 041861           10 LADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--PPDGHRKSEYQ   70 (73)
Q Consensus        10 L~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--~~~~~~~lf~~   70 (73)
                      -.+||---..|-.|+     .+.....-.||..|++.-|+.+|||+.=|.|.-..  |.+..|.+|.+
T Consensus       100 tnkff~D~k~w~~y~~Y~~k~k~y~~~~nI~~~~l~khP~nvdlWI~~c~~e~~~~ani~s~Ra~f~~  167 (435)
T COG5191         100 TNKFFNDPKIWSQYAAYVIKKKMYGEMKNIFAECLTKHPLNVDLWIYCCAFELFEIANIESSRAMFLK  167 (435)
T ss_pred             hhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeeeeccchhhhhccHHHHHHHHHh
Confidence            357888889999999     67788888999999999999999999878887666  88888888764

>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=94.21  E-value=0.27  Score=25.87  Aligned_cols=46  Identities=7%  Similarity=0.137  Sum_probs=37.5

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++++++++...|.+.+.|.......... +.+...+.+++
T Consensus        13 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~   59 (100)
T cd00189          13 LGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEK   59 (100)
T ss_pred             HhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            68899999999999999898888888777776665 77777776654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.06  E-value=0.54  Score=33.96  Aligned_cols=68  Identities=12%  Similarity=0.176  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHccch-----HHHHHHHH---hcchHHHHHHHHHHHhhccCc---HHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLC-----YGYWRKAC---CALLTRVVEVFEQSMQSATYS---SDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~-----~~YWkkya---~~~~~~a~~V~erav~~~p~S---vdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++|+.+||-.     ..||.=.+   .|+.++|...|++.+...|.|   .|.|..=....... +.+..+..+++
T Consensus       163 i~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~  242 (263)
T PRK10803        163 IVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQ  242 (263)
T ss_pred             HHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45799999999975     67888777   899999999999999988875   55554322222222 77777777654

>PRK11189 lipoprotein NlpI; Provisional

Probab=93.99  E-value=0.53  Score=33.69  Aligned_cols=49  Identities=8%  Similarity=-0.004  Sum_probs=28.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHY   52 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Y   52 (73)
                      ..|++.++..|-....|...+     .|+.++|++.|+++++--|.....|.+-
T Consensus        85 ~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~l  138 (296)
T PRK11189         85 NDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNR  138 (296)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            345556666666666665555     5566666666666666555555555543

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

Probab=93.95  E-value=0.53  Score=34.93  Aligned_cols=68  Identities=4%  Similarity=-0.036  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.|...|-....|...|     +|+.++|+..+++++.--|.+...|.......... +.+.....+++
T Consensus        22 i~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~   95 (356)
T PLN03088         22 VDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEK   95 (356)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            3567788888888888887777     67888888888888887777777766554443333 55555554443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=93.74  E-value=0.5  Score=38.18  Aligned_cols=62  Identities=5%  Similarity=-0.104  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHR   65 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~   65 (73)
                      ...+++++..+|-... |...+     .|..++|+..+++++..-|.+.+++..+....... .++...
T Consensus       103 ~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049        103 LVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             HHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHH
Confidence            4567888888888888 87777     68888888888888888888888888887766554 444333

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.45  E-value=0.16  Score=24.18  Aligned_cols=21  Identities=14%  Similarity=0.165  Sum_probs=19.7

Q ss_pred             hcchHHHHHHHHHHHhhccCc
Q 041861           25 CALLTRVVEVFEQSMQSATYS   45 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~S   45 (73)
                      .|+.++|+++|++.+...|.|
T Consensus        13 ~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen   13 LGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HCHHHHHHHHHHHHHHHSTTS
T ss_pred             ccCHHHHHHHHHHHHHHCcCC
Confidence            789999999999999999976

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=93.24  E-value=0.69  Score=36.91  Aligned_cols=67  Identities=9%  Similarity=-0.068  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.+...|-...-|-.++     .|+.++|+..+++++..-|.+.+.+..+....... +.++....++
T Consensus       270 ~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~  342 (656)
T PRK15174        270 AEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFV  342 (656)
T ss_pred             HHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            3456666666776666666666     56677777777777766666666666655555444 5555444443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=93.19  E-value=0.63  Score=37.64  Aligned_cols=67  Identities=3%  Similarity=-0.178  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...+++.+...|-..+.|...|     .|..++|++++++++..-|.+.+++.......... +.++...+..
T Consensus       379 ~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~  451 (765)
T PRK10049        379 EMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTD  451 (765)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            4678899999999999999999     68999999999999999999999998877766554 5555555443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=93.11  E-value=0.77  Score=36.66  Aligned_cols=67  Identities=12%  Similarity=-0.114  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|..-....... +.++....+.
T Consensus        96 ~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~  168 (656)
T PRK15174         96 LQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLAR  168 (656)
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            4567888888888888887777     67888888888888887788888887766665555 5555555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=92.90  E-value=0.72  Score=39.11  Aligned_cols=64  Identities=6%  Similarity=-0.034  Sum_probs=33.6

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .|++.+...|-....+..++     .|..++|+++|+++++.-|.+.++|.+........ +.+.....+
T Consensus       631 ~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l  700 (987)
T PRK09782        631 DLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYA  700 (987)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            45555555555555555554     45555555555555555555555555554444443 444444433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=92.30  E-value=1.7  Score=29.16  Aligned_cols=70  Identities=4%  Similarity=-0.040  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHccchHHHHHHH-----------------H-----hcchHHHHHHHHHHHhhccCc---HHHHHHHHHHHh
Q 041861            3 RLVYNSFLADFHLCYGYWRKA-----------------C-----CALLTRVVEVFEQSMQSATYS---SDVWFHYCNLAS   57 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkky-----------------a-----~~~~~~a~~V~erav~~~p~S---vdLW~~Yl~f~~   57 (73)
                      ...|++++..+|-.-..|.-+                 |     .|+.++|+..|++++...|.+   .+.|..-.....
T Consensus       135 ~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~  214 (235)
T TIGR03302       135 FEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYL  214 (235)
T ss_pred             HHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHH
Confidence            567899999999987766333                 1     489999999999999997764   578887777776


Q ss_pred             hc-Ccchhhhhhhhhh
Q 041861           58 EV-PPDGHRKSEYQEE   72 (73)
Q Consensus        58 ~~-~~~~~~~lf~~~~   72 (73)
                      .. +.++....+++.+
T Consensus       215 ~lg~~~~A~~~~~~l~  230 (235)
T TIGR03302       215 KLGLKDLAQDAAAVLG  230 (235)
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            66 7777777766543

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).

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=92.15  E-value=0.98  Score=36.96  Aligned_cols=46  Identities=7%  Similarity=-0.050  Sum_probs=37.3

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      +|..++|+++|+|++...|-.-+.|++|..-++.. +.++....|++
T Consensus       167 ~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~  213 (694)
T PRK15179        167 IGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQA  213 (694)
T ss_pred             hcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            57888888888888887777788888888888877 77777777665

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

Probab=92.08  E-value=1.3  Score=25.63  Aligned_cols=67  Identities=9%  Similarity=0.084  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHccc--hHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHL--CYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl--~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      -..|+++++.-|.  -..+|...|     .|+.++|++++++ ...-|.+++...-+..-.... +-++..+.+++
T Consensus         9 i~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen    9 IKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence            3578999999995  567888777     8999999999999 554454444444333322222 66666666654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=91.84  E-value=1.6  Score=25.49  Aligned_cols=68  Identities=10%  Similarity=0.054  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHccch---HHHHHHHH-----hcchHHHHHHHHHHHhhccCc---HHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLC---YGYWRKAC-----CALLTRVVEVFEQSMQSATYS---SDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~---~~YWkkya-----~~~~~~a~~V~erav~~~p~S---vdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++++..+|-.   ..-+...+     .|+.+.|.+.|++++...|.+   .+.|.......... +.+.....+.+
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  101 (119)
T TIGR02795        22 IQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQ  101 (119)
T ss_pred             HHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHH
Confidence            45688888888743   23344444     788999999999999877764   45566555554444 66666665554

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.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=91.83  E-value=0.55  Score=33.90  Aligned_cols=44  Identities=9%  Similarity=0.080  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHccc---hHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH
Q 041861            3 RLVYNSFLADFHL---CYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS   46 (73)
Q Consensus         3 r~~Y~~fL~~fPl---~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv   46 (73)
                      ...|++++.+||-   -.+-|.+.+     +|+.++|+++|++.+...|.|-
T Consensus       200 ~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        200 AYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            4679999999997   677787776     8999999999999999999864

>PRK12370 invasion protein regulator; Provisional

Probab=91.81  E-value=1.4  Score=34.30  Aligned_cols=46  Identities=4%  Similarity=-0.015  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDV   48 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdL   48 (73)
                      ...|++.|...|-....|..++     .|..++|++.++++++--|.....
T Consensus       358 ~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~  408 (553)
T PRK12370        358 SLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAA  408 (553)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhh
Confidence            4578889999999988888777     788999999999999988876553

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=91.70  E-value=1.6  Score=31.13  Aligned_cols=46  Identities=7%  Similarity=-0.038  Sum_probs=26.8

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .++.++|++.|++++...|.+.+.|.......... ++++...++++
T Consensus       193 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~  239 (389)
T PRK11788        193 RGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALER  239 (389)
T ss_pred             CCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            46666677777776666666666665554444433 55555555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=91.44  E-value=1.4  Score=37.42  Aligned_cols=67  Identities=6%  Similarity=-0.153  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|- ...|...+     .|..++|++.|++++..-|.+.+.+.++....... +.++....+++
T Consensus       596 l~~~~~AL~l~P~-~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~  668 (987)
T PRK09782        596 LNDLTRSLNIAPS-ANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLER  668 (987)
T ss_pred             HHHHHHHHHhCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3567888888886 77888777     78899999999999999899999998888777766 66666665554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=90.83  E-value=1.2  Score=28.80  Aligned_cols=50  Identities=8%  Similarity=-0.194  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHY   52 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Y   52 (73)
                      ...|++.+..-|-....|...+     +|..++|++.|++++..-|...+-|.+-
T Consensus        78 ~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~  132 (144)
T PRK15359         78 INFYGHALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIR  132 (144)
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            3578899999999999999988     8999999999999999999988888653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=90.74  E-value=0.43  Score=24.18  Aligned_cols=30  Identities=7%  Similarity=0.192  Sum_probs=21.3

Q ss_pred             HHHHHhhccCcHHHHHHHHHHHhhc-Ccchh
Q 041861           35 FEQSMQSATYSSDVWFHYCNLASEV-PPDGH   64 (73)
Q Consensus        35 ~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~   64 (73)
                      |+|||+--|.+.+.|.++..+.... +.++.
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhh
Confidence            6777887788888888877776655 54443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=90.60  E-value=1.2  Score=26.07  Aligned_cols=44  Identities=9%  Similarity=-0.013  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHccch---HHHHHHHH-----hcchHHHHHHHHHHHhhccCcH
Q 041861            3 RLVYNSFLADFHLC---YGYWRKAC-----CALLTRVVEVFEQSMQSATYSS   46 (73)
Q Consensus         3 r~~Y~~fL~~fPl~---~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv   46 (73)
                      ...|++++..+|--   ...|...+     .++.++|.+.+++++...|.|.
T Consensus        59 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  110 (119)
T TIGR02795        59 AKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPGSS  110 (119)
T ss_pred             HHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcCCh
Confidence            46788999988873   45676666     7999999999999999999864

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=90.58  E-value=1.9  Score=36.50  Aligned_cols=65  Identities=8%  Similarity=-0.100  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKS   67 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~l   67 (73)
                      ...|++.|...|-.-..+...+     .|+.++|++++++++..-|.+.+.+..+..+.... ++++....
T Consensus       481 ~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~  551 (1157)
T PRK11447        481 AELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAH  551 (1157)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            4578899999998776666666     78999999999999998899999888777665544 44444433

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

Probab=90.52  E-value=1.7  Score=32.00  Aligned_cols=69  Identities=12%  Similarity=0.023  Sum_probs=61.5

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .++..|+-|+.=|--++-|---|     .|..+.|.+-|++|+.--|.+=|+=.||=.|++.. .|++.-.-|++
T Consensus        54 A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~  128 (250)
T COG3063          54 AKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFER  128 (250)
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHH
Confidence            45678899999999999999888     89999999999999999999999999999999988 77777666654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.42  E-value=0.95  Score=21.53  Aligned_cols=26  Identities=15%  Similarity=0.270  Sum_probs=20.3

Q ss_pred             HHHHHH-----hcchHHHHHHHHHHHhhccC
Q 041861           19 YWRKAC-----CALLTRVVEVFEQSMQSATY   44 (73)
Q Consensus        19 YWkkya-----~~~~~~a~~V~erav~~~p~   44 (73)
                      .|...+     .|+.++|++.|++|+.--|.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            455555     89999999999999997774

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 ....

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

Probab=89.14  E-value=2.6  Score=25.63  Aligned_cols=66  Identities=8%  Similarity=0.021  Sum_probs=46.3

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|++.++.-|--..-=..++     .++.++|.+.+++++..-|.+.+.|..-....... +.++....+.+
T Consensus         5 ~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~   76 (135)
T TIGR02552         5 TLKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYAL   76 (135)
T ss_pred             hHHHHHcCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666664422111222     78999999999999998899999998887777655 66666655544

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

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=88.85  E-value=4  Score=29.05  Aligned_cols=67  Identities=10%  Similarity=-0.059  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH-HHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS-DVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv-dLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.++..|-....|...+     .|+.++|++.+++++..-|... +.|..-....... +.++....++
T Consensus       200 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~  273 (389)
T PRK11788        200 RALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLR  273 (389)
T ss_pred             HHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3457777777777766666665     6778888888888777555432 3333322222222 5555544443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=88.78  E-value=4.3  Score=27.75  Aligned_cols=45  Identities=7%  Similarity=0.132  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD   47 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd   47 (73)
                      .+.|+-+...=|..+.||..++     +|+.++|++.|++|+.-=|..-.
T Consensus        55 ~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~  104 (157)
T PRK15363         55 ARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQ  104 (157)
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCch
Confidence            4567777778899999999999     89999999999999986565433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=88.65  E-value=2.1  Score=30.31  Aligned_cols=53  Identities=6%  Similarity=-0.034  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHccch-----HHHHHHHH---hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861            3 RLVYNSFLADFHLC-----YGYWRKAC---CALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus         3 r~~Y~~fL~~fPl~-----~~YWkkya---~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      ...|++++.+||.-     ..+|.-++   .++.+.|+..|++.++..|.+-+.  +|+.|++
T Consensus        52 i~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~--~~a~Y~~  112 (243)
T PRK10866         52 ITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI--DYVLYMR  112 (243)
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch--HHHHHHH
Confidence            56799999999943     23566666   899999999999999999998774  5555554

>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=88.47  E-value=2.4  Score=23.14  Aligned_cols=41  Identities=7%  Similarity=-0.038  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hc-chHHHHHHHHHHHhhcc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CA-LLTRVVEVFEQSMQSAT   43 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~-~~~~a~~V~erav~~~p   43 (73)
                      ...|++-+..-|-....|-..+     .| +.++|++-+++|++--|
T Consensus        23 ~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen   23 IEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3578999999999999999999     67 79999999999998544

...

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

Probab=88.45  E-value=5  Score=27.35  Aligned_cols=68  Identities=7%  Similarity=-0.073  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH------hcc--hHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC------CAL--LTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya------~~~--~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..+|++.+...|--...|-.+|      .|+  .++|.++++++++.-|..++.+..-....... +.++....+++
T Consensus        93 ~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         93 LLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678999999999999999988      244  59999999999999999888876655444444 55555554443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=88.32  E-value=3.1  Score=35.24  Aligned_cols=66  Identities=8%  Similarity=-0.125  Sum_probs=34.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-...-|...+     .|+.++|+++|++++..-|.+.+.+.......... +.++...+++
T Consensus       624 ~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~  695 (1157)
T PRK11447        624 AAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFN  695 (1157)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            445555666665555555555     45566666666655555555555555444433322 4444444443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=88.17  E-value=1.2  Score=36.12  Aligned_cols=66  Identities=11%  Similarity=0.117  Sum_probs=45.8

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      |.-+|+..+.-||+|..-|.+|.     .++-++|..+-+||+.--|   .|=..|..+-..+ |.+.|+.-|++
T Consensus       287 i~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~sp---sL~~~lse~yel~nd~e~v~~~fdk  358 (660)
T COG5107         287 IHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSP---SLTMFLSEYYELVNDEEAVYGCFDK  358 (660)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCC---chheeHHHHHhhcccHHHHhhhHHH
Confidence            34578888888899999998888     6677778877777766544   3555555555555 66666665543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=87.34  E-value=4.6  Score=33.15  Aligned_cols=68  Identities=7%  Similarity=-0.078  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...+++.++..|-..+.+..+|     .+.+|+|...+++++..-|.|-+-=......+... .-++...+|++
T Consensus       106 ~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~  179 (694)
T PRK15179        106 LAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQSEQADACFER  179 (694)
T ss_pred             HHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            3456777777777777777777     56777777777777777777777666555555555 66666666655

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

Probab=86.40  E-value=5.3  Score=29.61  Aligned_cols=56  Identities=9%  Similarity=-0.089  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH--HHHHHHHHHhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD--VWFHYCNLASE   58 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd--LW~~Yl~f~~~   58 (73)
                      ...+++.|...|-....|...+     +|+.+.|+..|++|+.--|...+  .|...|.-.+.
T Consensus        56 l~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl~  118 (356)
T PLN03088         56 VADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKECDEKIA  118 (356)
T ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            3568899999999999999888     89999999999999998887555  78888866653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=85.37  E-value=1.1  Score=22.66  Aligned_cols=28  Identities=4%  Similarity=-0.079  Sum_probs=24.9

Q ss_pred             HHHHHHHccchHHHHHHHH-----hcchHHHHH
Q 041861            6 YNSFLADFHLCYGYWRKAC-----CALLTRVVE   33 (73)
Q Consensus         6 Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~   33 (73)
                      |++-++..|-....|..++     .|+.++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            7889999999999999999     788888763

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

Probab=85.35  E-value=1.4  Score=22.10  Aligned_cols=15  Identities=20%  Similarity=0.395  Sum_probs=12.9

Q ss_pred             hcchHHHHHHHHHHH
Q 041861           25 CALLTRVVEVFEQSM   39 (73)
Q Consensus        25 ~~~~~~a~~V~erav   39 (73)
                      .|+.++|++.|++++
T Consensus        12 ~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen   12 QGDYEKAIEYYEQAL   26 (36)
T ss_dssp             CT-HHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH
Confidence            799999999999966

>smart00028 TPR Tetratricopeptide repeats

Probab=85.26  E-value=2  Score=18.25  Aligned_cols=25  Identities=8%  Similarity=0.085  Sum_probs=19.6

Q ss_pred             HHHHHH-----hcchHHHHHHHHHHHhhcc
Q 041861           19 YWRKAC-----CALLTRVVEVFEQSMQSAT   43 (73)
Q Consensus        19 YWkkya-----~~~~~~a~~V~erav~~~p   43 (73)
                      .|...+     .++.+.|+..|++++..-|
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            345555     7899999999999998655

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.

>COG4508 Dimeric dUTPase [Carbohydrate transport and metabolism]

Probab=85.18  E-value=1.3  Score=30.52  Aligned_cols=45  Identities=13%  Similarity=0.446  Sum_probs=38.7

Q ss_pred             cchHHHHHHHHhcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861           14 HLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus        14 Pl~~~YWkkya~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      --||.||++=+-.+.....+-|..|+.-+ +|+.|-.+|.+|.+-.
T Consensus        47 trcFkYW~~~~p~~~~~ilEEY~dglHF~-lsigl~~~~~d~~ip~   91 (161)
T COG4508          47 TRCFKYWKLSKPIDLAKILEEYSDGLHFL-LSIGLYYQLSDFLIPF   91 (161)
T ss_pred             hhHHHhhhhcCCCcHHHHHHHHhhhHHHH-HHhHHHHHhhhhhccc
Confidence            45999999988888889999999999854 7999999999988755

>PRK11189 lipoprotein NlpI; Provisional

Probab=84.49  E-value=7.7  Score=27.72  Aligned_cols=66  Identities=14%  Similarity=0.009  Sum_probs=49.9

Q ss_pred             HHHHHHHHccch----HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            5 VYNSFLADFHLC----YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         5 ~Y~~fL~~fPl~----~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .+.+.|.+-|+-    ..+|...+     .|..+.|+..|++++..-|...+.|.+-....... +.+.....|.+
T Consensus        48 ~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~  123 (296)
T PRK11189         48 RLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDS  123 (296)
T ss_pred             HHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            456677766643    45677766     79999999999999999999999998877665555 66666665554

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=84.16  E-value=8.8  Score=24.66  Aligned_cols=67  Identities=7%  Similarity=0.013  Sum_probs=46.1

Q ss_pred             hHHHHHHHHHHccch---------HHHHHHHH-hcchHHHHHHHHHHHhh-cc-CcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            2 IRLVYNSFLADFHLC---------YGYWRKAC-CALLTRVVEVFEQSMQS-AT-YSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~---------~~YWkkya-~~~~~~a~~V~erav~~-~p-~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      +..++++.+..|+-.         -..|.+|| ..+  .+.+||+....+ +. .+-.+|..|+.+.... +-+++.+|+
T Consensus        45 L~~lLer~~~~f~~~~~Y~nD~RylkiWi~ya~~~~--~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~  122 (126)
T PF08311_consen   45 LLELLERCIRKFKDDERYKNDERYLKIWIKYADLSS--DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIY  122 (126)
T ss_dssp             HHHHHHHHHHHHTTSGGGTT-HHHHHHHHHHHTTBS--HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHhhcCCHHHHHHHHHHHHHcc--CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            345677777777554         45699999 333  777777766652 33 3567899999988887 888888877


Q ss_pred             hh
Q 041861           69 YQ   70 (73)
Q Consensus        69 ~~   70 (73)
                      .+
T Consensus       123 ~~  124 (126)
T PF08311_consen  123 QL  124 (126)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>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=83.79  E-value=3.2  Score=26.09  Aligned_cols=47  Identities=2%  Similarity=0.032  Sum_probs=35.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      .|+.++|+..+++++..=|++-++|...+...... ++..+.+.|.+.
T Consensus        75 ~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   75 AGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             TT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            57788888888888888888888888888877777 777777777664

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

>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=82.99  E-value=9  Score=29.51  Aligned_cols=64  Identities=2%  Similarity=-0.128  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...++++.++.|-.   +...|     .+.-.+|+++..+++...|.+.+|..-...|+... +.+.+..+-.
T Consensus       189 i~lle~L~~~~pev---~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk  258 (395)
T PF09295_consen  189 IELLEKLRERDPEV---AVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKYELALEIAK  258 (395)
T ss_pred             HHHHHHHHhcCCcH---HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            46788888888853   33444     57788899999999999999999999999999887 5665555443

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

>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=82.42  E-value=5.6  Score=24.94  Aligned_cols=40  Identities=13%  Similarity=-0.037  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSA   42 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~   42 (73)
                      ....++.+...|+...-|....     .|+...|.++|++....+
T Consensus        82 ~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l  126 (146)
T PF03704_consen   82 LRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRL  126 (146)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            3567889999999999999988     899999999999987753

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

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

Probab=82.09  E-value=9.4  Score=26.88  Aligned_cols=67  Identities=10%  Similarity=-0.096  Sum_probs=40.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH----HHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS----DVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv----dLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..+++.+..-|-....+--++     .|..++|++.+++++...|.+.    ..|.+........ +.++...++++
T Consensus       135 ~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~  211 (355)
T cd05804         135 EAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDT  211 (355)
T ss_pred             HHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            456666666666655555555     5777777777777777655322    2455555555444 66666666554

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=81.65  E-value=5.1  Score=26.99  Aligned_cols=54  Identities=2%  Similarity=-0.015  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHccch-----HHHHHHHH---hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhh
Q 041861            3 RLVYNSFLADFHLC-----YGYWRKAC---CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASE   58 (73)
Q Consensus         3 r~~Y~~fL~~fPl~-----~~YWkkya---~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~   58 (73)
                      .+.++.+..+||.-     ...|.-||   .++.+.|+..++|=++--|.+-+  ++|+.+++.
T Consensus        30 ~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~--vdYa~Y~~g   91 (142)
T PF13512_consen   30 IKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN--VDYAYYMRG   91 (142)
T ss_pred             HHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC--ccHHHHHHH
Confidence            56788999999973     45677777   78999999999999998888877  455544443

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=81.56  E-value=2.3  Score=27.39  Aligned_cols=27  Identities=15%  Similarity=0.394  Sum_probs=18.2

Q ss_pred             ccchHHHHHHHH--hcchHHHHHHHHHHH
Q 041861           13 FHLCYGYWRKAC--CALLTRVVEVFEQSM   39 (73)
Q Consensus        13 fPl~~~YWkkya--~~~~~~a~~V~erav   39 (73)
                      .+++|.-|-.+.  .|+.++|.+||++||
T Consensus        98 ~A~fY~~wA~~le~~~~~~~A~~I~~~Gi  126 (126)
T PF08311_consen   98 LALFYEEWAEFLEKRGNFKKADEIYQLGI  126 (126)
T ss_dssp             BHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHhhC
Confidence            344444444433  899999999999996

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>TIGR00540 hemY_coli hemY protein

Probab=80.75  E-value=13  Score=27.61  Aligned_cols=67  Identities=4%  Similarity=-0.065  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHccchH--HHHHHHH-----hcchHHHHHHHH--HHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCY--GYWRKAC-----CALLTRVVEVFE--QSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~--~YWkkya-----~~~~~~a~~V~e--rav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .+..++.|+..|-..  .+---++     .|+.++|.+.||  +++..-|.+.+ ..++....... ++++.++++.+
T Consensus       319 ~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~-~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       319 EKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND-LAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHH
Confidence            345566777777666  4433333     788888888888  56666665555 44666666666 77777777654

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.

>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=80.42  E-value=4.4  Score=19.22  Aligned_cols=19  Identities=16%  Similarity=0.266  Sum_probs=16.8

Q ss_pred             hcchHHHHHHHHHHHhhcc
Q 041861           25 CALLTRVVEVFEQSMQSAT   43 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p   43 (73)
                      +|+.++|.+.|++|++--|
T Consensus        14 ~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen   14 LGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             TTSHHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHhhCC
Confidence            8999999999999998544

...

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=80.35  E-value=6.7  Score=26.23  Aligned_cols=45  Identities=2%  Similarity=0.009  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHccchH---HHHHHHH-----hcchHHHHHHHHHHHhhccCcHH
Q 041861            3 RLVYNSFLADFHLCY---GYWRKAC-----CALLTRVVEVFEQSMQSATYSSD   47 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~---~YWkkya-----~~~~~~a~~V~erav~~~p~Svd   47 (73)
                      ...|++++..+|-..   .-|...+     .++.++|++.|+++++..|.+.+
T Consensus        53 ~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~  105 (235)
T TIGR03302        53 IKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPD  105 (235)
T ss_pred             HHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc
Confidence            457889999999654   3455555     79999999999999999997776

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).

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	73
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.54
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.21
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.21
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.91
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.63
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.63
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	98.5
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.46
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.43
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.6
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.59
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.55
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.52
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.47
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.41
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.41
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.38
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.37
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.36
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.31
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.29
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.29
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.29
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.27
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.26
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.23
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.22
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.18
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.15
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.14
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	97.13
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.11
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	97.05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	96.98
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	96.97
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.97
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	96.96
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	96.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	96.86
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	96.85
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	96.84
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	96.83
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	96.81
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	96.76
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	96.68
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	96.6
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	96.59
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	96.56
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	96.56
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	96.54
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	96.53
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.53
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	96.49
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	96.49
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	96.48
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.46
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	96.45
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	96.42
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	96.39
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	96.37
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	96.37
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	96.36
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	96.33
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	96.33
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	96.32
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.3
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	96.27
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.27
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	96.26
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.26
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	96.18
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.16
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	96.15
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	96.13
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	96.1
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.1
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	96.1
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	96.1
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	96.07
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	96.03
3u4t_A	272	TPR repeat-containing protein; structural genomics	95.99
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	95.98
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	95.94
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	95.94
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	95.89
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	95.88
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	95.87
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	95.8
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.74
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	95.74
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	95.7
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	95.68
3k9i_A	117	BH0479 protein; putative protein binding protein,	95.66
2gw1_A	514	Mitochondrial precursor proteins import receptor;	95.64
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	95.63
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	95.55
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	95.54
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	95.47
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	95.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	95.42
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	95.4
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	95.36
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	95.35
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	95.33
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	95.33
2gw1_A	514	Mitochondrial precursor proteins import receptor;	95.33
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	95.31
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	95.31
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	95.26
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	95.24
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	94.97
3u4t_A	272	TPR repeat-containing protein; structural genomics	94.94
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	94.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	94.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	94.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	94.6
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	94.58
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	94.51
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	94.42
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.37
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	94.28
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	94.27
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	94.25
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	94.22
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	94.2
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	94.18
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	94.13
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	94.11
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	93.93
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	93.89
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	93.83
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	93.61
2kat_A	115	Uncharacterized protein; NESG, structure, structur	93.59
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	93.34
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	93.28
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	93.2
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	92.95
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	92.87
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	92.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	92.14
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	92.11
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	91.64
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	91.48
4g1t_A	472	Interferon-induced protein with tetratricopeptide	91.2
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	90.79
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	90.77
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	90.27
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	90.25
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	90.2
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	89.29
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	88.76
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	87.29
4g1t_A	472	Interferon-induced protein with tetratricopeptide	86.88
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	86.66
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	86.51
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	86.39
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	86.38
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	86.31
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	84.69
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	84.64
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	83.87
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	82.94
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	82.92
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	81.27
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	81.27

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.54  E-value=1e-14  Score=113.90  Aligned_cols=69  Identities=9%  Similarity=0.139  Sum_probs=59.9

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcc---hHHHHHHHHHHHhhcc--CcHHHHHHHHHHHhhc-Cc--------c
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CAL---LTRVVEVFEQSMQSAT--YSSDVWFHYCNLASEV-PP--------D   62 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~---~~~a~~V~erav~~~p--~SvdLW~~Yl~f~~~~-~~--------~   62 (73)
                      +|.+|+++|..||+++++|++|+     .++   .+++++||+|||..+|  +|++||..||.|++.+ +.        +
T Consensus        85 aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~  164 (679)
T 4e6h_A           85 VYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARN  164 (679)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHH
Confidence            68999999999999999999999     677   9999999999999994  7999999999999876 32        4


Q ss_pred             hhhhhhhh
Q 041861           63 GHRKSEYQ   70 (73)
Q Consensus        63 ~~~~lf~~   70 (73)
                      .++++|++
T Consensus       165 ~vr~~FEr  172 (679)
T 4e6h_A          165 IVIQAFQV  172 (679)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            46678876

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.21  E-value=3.1e-11  Score=87.61  Aligned_cols=68  Identities=16%  Similarity=0.318  Sum_probs=59.5

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--Ccchhhh----hhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--PPDGHRK----SEYQ   70 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--~~~~~~~----lf~~   70 (73)
                      +|.+|+++|..||.+.++|++|+     .|+.++|+++|+|||...| ++++|..|+.|+...  +.+..++    +|++
T Consensus        31 a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p-~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~  109 (530)
T 2ooe_A           31 ARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVL-HIDLWKCYLSYVRETKGKLPSYKEKMAQAYDF  109 (530)
T ss_dssp             HHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCC-CHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHccchhhHHHHHHHHHHH
Confidence            57899999999999999999999     7899999999999999999 899999999998765  5555443    5554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.21  E-value=1.7e-11  Score=91.32  Aligned_cols=59  Identities=8%  Similarity=0.072  Sum_probs=52.5

Q ss_pred             ChHHHHHHHHHHccchHHHHHHHHhcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc--Ccchhhhhhhh
Q 041861            1 MIRLVYNSFLADFHLCYGYWRKACCALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV--PPDGHRKSEYQ   70 (73)
Q Consensus         1 ~~r~~Y~~fL~~fPl~~~YWkkya~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~--~~~~~~~lf~~   70 (73)
                      .+|++|+++|+.||+          ++.+++++||+|||..+| |++||..||+|.+..  +++.++.+|++
T Consensus        13 ~aR~vyer~l~~~P~----------~~~e~~~~iferal~~~p-s~~LW~~Y~~f~~~~~~~~~~i~~~fe~   73 (493)
T 2uy1_A           13 SPSAIMEHARRLYMS----------KDYRSLESLFGRCLKKSY-NLDLWMLYIEYVRKVSQKKFKLYEVYEF   73 (493)
T ss_dssp             CHHHHHHHHHHHHHT----------TCHHHHHHHHHHHSTTCC-CHHHHHHHHHHHHHHC----CTHHHHHH
T ss_pred             HHHHHHHHHHHHCCC----------CCHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            379999999999999          899999999999999998 999999999999998  46788888876

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.91  E-value=2.7e-09  Score=83.36  Aligned_cols=70  Identities=10%  Similarity=0.027  Sum_probs=64.9

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHH-HHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVV-EVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~-~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      ++.+|++-|..+|.....|.+||     .|+.++|. +||+||+.++|.|+.||..|+.+.... +.+++|.++++.
T Consensus       328 v~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~  404 (679)
T 4e6h_A          328 MTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            35789999999999999999999     67888996 999999999999999999999999988 999999999864

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.63  E-value=9.4e-08  Score=71.17  Aligned_cols=53  Identities=11%  Similarity=0.097  Sum_probs=48.0

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ++.+|++.|..+|.....|.+||     .|+.++|.+||+||+.+ |.|..||..|..+
T Consensus       198 v~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~~y~~~  255 (493)
T 2uy1_A          198 MHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSLYYGLV  255 (493)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHHHHHhh
Confidence            35799999999999999999999     78999999999999999 9998777777666

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.63  E-value=8.2e-08  Score=69.56  Aligned_cols=67  Identities=12%  Similarity=0.098  Sum_probs=62.3

Q ss_pred             HHHHHHHHccchHHHHHHHH----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      ++++.|.+.|...+-|.+++    .|+.++|+.+|++++..+|.+.++|..|+.+.... +.+.++.+|+|-
T Consensus         1 ~le~al~~~P~~~~~w~~l~~~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ra   72 (530)
T 2ooe_A            1 MAEKKLEENPYDLDAWSILIREAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRC   72 (530)
T ss_dssp             CHHHHHHHCTTCHHHHHHHHHHHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ChhhHhhhCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            36889999999999999999    68999999999999999999999999999999888 999999999873

>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=98.50  E-value=2.1e-07  Score=63.05  Aligned_cols=58  Identities=10%  Similarity=0.155  Sum_probs=51.1

Q ss_pred             ccchHHHHHHHH-----hcch------HHHHHHHHHHHhhccCcHH--------HHHHHHHHHhhcCcchhhhhhhh
Q 041861           13 FHLCYGYWRKAC-----CALL------TRVVEVFEQSMQSATYSSD--------VWFHYCNLASEVPPDGHRKSEYQ   70 (73)
Q Consensus        13 fPl~~~YWkkya-----~~~~------~~a~~V~erav~~~p~Svd--------LW~~Yl~f~~~~~~~~~~~lf~~   70 (73)
                      -|..|+-|-.|+     .|++      ++.+++|+||+.++|++..        ||+.|+.|....|+|+.|++|..
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~   85 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQM   85 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            488899999999     4888      9999999999999999744        99999999766699999999875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.46  E-value=8.3e-07  Score=60.30  Aligned_cols=69  Identities=10%  Similarity=0.184  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH---h---------cch-------HHHHHHHHHHHhh-ccCcHHHHHHHHHHHhhc-Cc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC---C---------ALL-------TRVVEVFEQSMQS-ATYSSDVWFHYCNLASEV-PP   61 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya---~---------~~~-------~~a~~V~erav~~-~p~SvdLW~~Yl~f~~~~-~~   61 (73)
                      ...|++.|...|.....|..|+   .         |+.       ++|+++|+||+.. -|.+.++|..|..+.... +.
T Consensus        36 ~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~  115 (308)
T 2ond_A           36 MFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY  115 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH
Confidence            3689999999999999999999   2         565       8999999999995 688999999999999887 88


Q ss_pred             chhhhhhhhh
Q 041861           62 DGHRKSEYQE   71 (73)
Q Consensus        62 ~~~~~lf~~~   71 (73)
                      ++++.+|++-
T Consensus       116 ~~A~~~~~~a  125 (308)
T 2ond_A          116 EKVHSIYNRL  125 (308)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988874

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.43  E-value=9.7e-07  Score=59.95  Aligned_cols=69  Identities=14%  Similarity=0.133  Sum_probs=57.3

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhh--cc--CcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQS--AT--YSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~--~p--~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .+..|++.|..+|-....|..|+     .|+.++|+.+|+||+..  +|  .+.++|..|+.|.... +.+++..++.|
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            46788999999999999999988     68899999999999985  34  3788999999998877 77888777665

>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=97.60  E-value=0.00011  Score=49.67  Aligned_cols=69  Identities=7%  Similarity=0.018  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHHccch-HHHHHHHH-----------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            2 IRLVYNSFLADFHLC-YGYWRKAC-----------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~-~~YWkkya-----------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      +|.+|++-.+.-|.- ..+|++|+           ++|.++|+++|..|+..-..=--+|+.|++|.++. +....|+|.
T Consensus        38 lrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkIL  117 (161)
T 4h7y_A           38 LIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLL  117 (161)
T ss_dssp             HHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            578999999999873 56777777           78999999999999873111256999999999998 888888875


Q ss_pred             hh
Q 041861           69 YQ   70 (73)
Q Consensus        69 ~~   70 (73)
                      .+
T Consensus       118 g~  119 (161)
T 4h7y_A          118 QK  119 (161)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.59  E-value=0.00092  Score=37.04  Aligned_cols=68  Identities=3%  Similarity=-0.152  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|.+.+++++..-|.+.+.|.......... +.++....+++
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~   97 (118)
T 1elw_A           24 LQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEE   97 (118)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4578889999999999999888     79999999999999999999999998887776666 77777776654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.55  E-value=0.00072  Score=40.75  Aligned_cols=68  Identities=12%  Similarity=0.146  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|....+|...+     .|+.++|++.|++++.--|.+.+.|.+........ +.++....+++
T Consensus        38 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  111 (142)
T 2xcb_A           38 QKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGDLDGAESGFYS  111 (142)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678999999999999999988     89999999999999999999999998877666655 77777666654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.52  E-value=0.00062  Score=43.16  Aligned_cols=68  Identities=6%  Similarity=0.023  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-...+|...+     .|..++|++.|++++.--|.+.+.|.+........ +.++....|++
T Consensus        56 ~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~  129 (151)
T 3gyz_A           56 EVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFEL  129 (151)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4679999999999999999988     89999999999999999999999999887777766 77777777665

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.47  E-value=0.0008  Score=38.81  Aligned_cols=68  Identities=9%  Similarity=-0.055  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus         5 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            5 TERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             HHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678999999999999999988     79999999999999999999999998877666655 77777776654

>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=97.41  E-value=0.0018  Score=37.54  Aligned_cols=68  Identities=10%  Similarity=0.071  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.+.....+++
T Consensus        29 ~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  102 (137)
T 3q49_B           29 AACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQR  102 (137)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4578999999999999999998     79999999999999999999999998887776665 66666665554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.41  E-value=0.0021  Score=35.71  Aligned_cols=68  Identities=10%  Similarity=0.098  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  102 (125)
T 1na0_A           29 IEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQK  102 (125)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            4578888999998888888888     78999999999999998898899888777666555 77777666654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.38  E-value=0.0011  Score=39.65  Aligned_cols=68  Identities=7%  Similarity=-0.061  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++.--|.+.+.|.......... +.++....+++
T Consensus        37 ~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  110 (121)
T 1hxi_A           37 ALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRA  110 (121)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678999999999999999998     89999999999999999999999998776665555 66666666554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.37  E-value=0.0015  Score=37.15  Aligned_cols=68  Identities=4%  Similarity=-0.112  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .++.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        36 ~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  109 (133)
T 2lni_A           36 MKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQK  109 (133)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            3568888888998888888888     78899999999999998898888888877766655 77777666654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.36  E-value=0.0026  Score=35.66  Aligned_cols=68  Identities=9%  Similarity=-0.092  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.+++++..-|.+.+.|.......... +.+.....+++
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  105 (131)
T 2vyi_A           32 VHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKK  105 (131)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            3567888888888888888877     78899999999999988888888888777666555 66666666554

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.31  E-value=0.0028  Score=36.80  Aligned_cols=68  Identities=3%  Similarity=-0.040  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     +|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        24 ~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~   97 (126)
T 3upv_A           24 VKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDA   97 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence            4578899999999999999988     89999999999999999999999998877766655 66666665554

>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=97.29  E-value=0.0021  Score=39.65  Aligned_cols=68  Identities=6%  Similarity=0.024  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-...+|...+     .|+.++|++.|++++.--|.+.+.|.+........ +.++....|++
T Consensus        41 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  114 (148)
T 2vgx_A           41 HXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQXGELAEAESGLFL  114 (148)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3578899999999999999888     79999999999999998899999988776665555 66666666554

>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=97.29  E-value=0.0036  Score=34.91  Aligned_cols=64  Identities=13%  Similarity=0.151  Sum_probs=30.8

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .|++.+...|-....|...+     .|+.++|.+.+++++..-|.+.+.|.......... +.++....+
T Consensus        23 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~   92 (136)
T 2fo7_A           23 YYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYY   92 (136)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHH
Confidence            34445555555544554444     44555555555555555555555554444433333 444444333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.29  E-value=0.0044  Score=33.96  Aligned_cols=68  Identities=10%  Similarity=0.097  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccC--cHHHHHHHHHHHhhc--Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATY--SSDVWFHYCNLASEV--PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~--SvdLW~~Yl~f~~~~--~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|..++     .|+.++|++.|++++..-|.  ..+.|..........  +.++..+.+.+
T Consensus        26 ~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~  102 (112)
T 2kck_A           26 IDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEAR  102 (112)
T ss_dssp             HHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            4578899999999999999888     79999999999999999999  899998877665543  55666555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.27  E-value=0.0027  Score=38.66  Aligned_cols=68  Identities=12%  Similarity=0.021  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        31 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  104 (164)
T 3sz7_A           31 IDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFDMADYKGAKEAYEK  104 (164)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            4578999999999999999988     79999999999999999999999998877776666 77776666554

>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=97.27  E-value=0.0038  Score=34.79  Aligned_cols=68  Identities=12%  Similarity=0.116  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|.+.+++++...|.+.+.|.......... +.++....+++
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           55 IEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHH
Confidence            4568888889998888888888     78999999999999999999999998887776666 77777777665

>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=97.26  E-value=0.0029  Score=38.81  Aligned_cols=57  Identities=11%  Similarity=0.042  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.|...|-....|...+     .|+.++|++.|+++++--|.+.+.|.+........
T Consensus        51 ~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~  112 (150)
T 4ga2_A           51 KKYICTYINVQERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELLCKN  112 (150)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            4678999999999999999999     89999999999999999999999999988766655

>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=97.23  E-value=0.0036  Score=36.93  Aligned_cols=66  Identities=3%  Similarity=-0.081  Sum_probs=37.2

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....++
T Consensus        34 ~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  105 (166)
T 1a17_A           34 KFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYE  105 (166)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            345556666666666666555     45666666666666666666666665555444433 4444444443

>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=97.22  E-value=0.0034  Score=38.35  Aligned_cols=67  Identities=6%  Similarity=0.003  Sum_probs=53.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH-Hhhc-Cc--chhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL-ASEV-PP--DGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f-~~~~-~~--~~~~~lf~~   70 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|..+... .... +.  +.....+++
T Consensus        31 ~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~  106 (177)
T 2e2e_A           31 QALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRAMIDK  106 (177)
T ss_dssp             HHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHH
Confidence            567888899999999998888     7889999999999999889889999888776 4333 54  666666554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.18  E-value=0.0042  Score=37.34  Aligned_cols=68  Identities=4%  Similarity=-0.061  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      -..|++.|...|-....|...+     +|+.++|++.|++++.--|.+.+.|.......... +.++....|++
T Consensus        33 ~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~  106 (126)
T 4gco_A           33 MRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYED  106 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3578999999999999999988     89999999999999998899999998877766665 77777766654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.15  E-value=0.0044  Score=37.86  Aligned_cols=68  Identities=9%  Similarity=-0.087  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...+++.+...|-....|...+     .|+.++|++.|+++++.-|.+.+.|.+........ +.++....|++
T Consensus        93 ~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  166 (184)
T 3vtx_A           93 IDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAVKYFKK  166 (184)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3567788888899888888888     78999999999999998899999998877666655 77777776654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.14  E-value=0.0018  Score=37.73  Aligned_cols=68  Identities=6%  Similarity=-0.030  Sum_probs=52.5

Q ss_pred             HHHHHHHHHH---ccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLAD---FHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~---fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.|..   -|-....|...+     .|+.++|++.|++++..-|.+.+.+..+....... +.++....+++
T Consensus        10 ~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   86 (117)
T 3k9i_A           10 VPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLK   86 (117)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3567788887   588888888888     78899999999999998898888888877666555 66666665543

>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=97.13  E-value=0.0052  Score=36.27  Aligned_cols=64  Identities=3%  Similarity=-0.046  Sum_probs=31.4

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .|++.+...|-....|...+     .|+.++|++.+++++...|.+.+.|.......... +.++....+
T Consensus        98 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           98 LLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44445555555555554444     45555555555555555555555554444433333 444444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.11  E-value=0.0056  Score=35.06  Aligned_cols=68  Identities=7%  Similarity=-0.087  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHccchH---HHHHHHH-----hcchHHHHHHHHHHHhhccCc---HHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCY---GYWRKAC-----CALLTRVVEVFEQSMQSATYS---SDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~---~YWkkya-----~~~~~~a~~V~erav~~~p~S---vdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++++..+|-..   ..|...+     .|+.++|++.|++++...|.+   .+.+.......... +.++....+++
T Consensus        22 ~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  101 (129)
T 2xev_A           22 SQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQ  101 (129)
T ss_dssp             HHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            457888999888766   6777666     789999999999999988888   67676655544444 77777666654

>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=97.05  E-value=0.0071  Score=35.67  Aligned_cols=68  Identities=12%  Similarity=-0.071  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...+++.+...|-....|...+     .|+.++|.+.+++++...|.+.+.|.......... +.++....+++
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~  135 (186)
T 3as5_A           62 TELLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKI  135 (186)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            3567788888888888888777     68888888888888888888888887776665555 66766666654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=96.98  E-value=0.0054  Score=41.73  Aligned_cols=68  Identities=6%  Similarity=0.082  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Cc-chhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PP-DGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~-~~~~~lf~~   70 (73)
                      ...|++.+..+|-....|...+     +|..++|++.|++++..-|...+.|.+........ +. +.+.+++++
T Consensus       186 ~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~  260 (291)
T 3mkr_A          186 YYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQ  260 (291)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4678899999999888888777     89999999999999999999999999988766666 44 345666654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.97  E-value=0.0053  Score=35.52  Aligned_cols=68  Identities=6%  Similarity=-0.078  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHccch---HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLC---YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~---~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-.   ...|...+     .++.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        48 ~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~  124 (148)
T 2dba_A           48 LAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQR  124 (148)
T ss_dssp             HHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            35677777778875   67777777     78888888888888888888888887766655544 66666555544

>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=96.97  E-value=0.0073  Score=33.85  Aligned_cols=68  Identities=7%  Similarity=-0.066  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc-------HHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS-------SDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S-------vdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++...|.+       .+.|.......... +.+.....++
T Consensus        24 ~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  103 (131)
T 1elr_A           24 LKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYN  103 (131)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            3568888999999999998888     799999999999999988876       77777766655555 7777766665


Q ss_pred             h
Q 041861           70 Q   70 (73)
Q Consensus        70 ~   70 (73)
                      +
T Consensus       104 ~  104 (131)
T 1elr_A          104 K  104 (131)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=96.96  E-value=0.0064  Score=38.60  Aligned_cols=68  Identities=7%  Similarity=-0.115  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        63 ~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  136 (275)
T 1xnf_A           63 RNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLA  136 (275)
T ss_dssp             HHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            3467777778888777777777     67788888888888887777777777776665555 66666665554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=96.90  E-value=0.01  Score=36.96  Aligned_cols=25  Identities=4%  Similarity=0.138  Sum_probs=9.9

Q ss_pred             cchHHHHHHHHHHHhhccCcHHHHH
Q 041861           26 ALLTRVVEVFEQSMQSATYSSDVWF   50 (73)
Q Consensus        26 ~~~~~a~~V~erav~~~p~SvdLW~   50 (73)
                      |+.++|++.+++++...|.+.+.|.
T Consensus       139 ~~~~~A~~~~~~~~~~~~~~~~~~~  163 (243)
T 2q7f_A          139 EQPKLALPYLQRAVELNENDTEARF  163 (243)
T ss_dssp             SCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCccHHHHH
Confidence            3344444444444443333333333

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=96.86  E-value=0.0083  Score=40.22  Aligned_cols=68  Identities=3%  Similarity=-0.073  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        85 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  158 (365)
T 4eqf_A           85 ILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKN  158 (365)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHH
Confidence            4678999999999999999988     79999999999999999999999999888877666 88877777765

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=96.85  E-value=0.0088  Score=40.07  Aligned_cols=66  Identities=9%  Similarity=0.044  Sum_probs=35.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.+........ +.++....++
T Consensus       234 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  305 (365)
T 4eqf_A          234 DAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSNFL  305 (365)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            345555555555555555555     45566666666666665555555555554444433 5555544444

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=96.84  E-value=0.012  Score=36.55  Aligned_cols=68  Identities=4%  Similarity=-0.134  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|.......... +.++....+++
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  218 (243)
T 2q7f_A          145 LPYLQRAVELNENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDK  218 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            4578888999998888888887     79999999999999999999999998887777666 78877777665

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=96.83  E-value=0.0081  Score=38.38  Aligned_cols=44  Identities=7%  Similarity=-0.009  Sum_probs=22.5

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .|+.++|++.|++++..-|.+.+.|.......... +.++....|
T Consensus        67 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~  111 (208)
T 3urz_A           67 NRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMY  111 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            45555555555555555555555555544443333 444444333

>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=96.81  E-value=0.012  Score=37.22  Aligned_cols=67  Identities=9%  Similarity=-0.050  Sum_probs=40.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|.......... +.++....+++
T Consensus        58 ~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  130 (252)
T 2ho1_A           58 VPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLE  130 (252)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            456666666666666666655     56666666666666666666666666655554444 55555555544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=96.76  E-value=0.0092  Score=38.36  Aligned_cols=67  Identities=10%  Similarity=0.022  Sum_probs=50.5

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----h-----------cchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----C-----------ALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRK   66 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~-----------~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~   66 (73)
                      ..|++.++..|-....|...+     .           |+.++|++.|++++.--|.+.+.|.......... +.++...
T Consensus        60 ~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~  139 (217)
T 2pl2_A           60 ENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEA  139 (217)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHH
Confidence            467788888888888887777     5           7888888888888888888888887776666555 6666666


Q ss_pred             hhhh
Q 041861           67 SEYQ   70 (73)
Q Consensus        67 lf~~   70 (73)
                      .+++
T Consensus       140 ~~~~  143 (217)
T 2pl2_A          140 SLKQ  143 (217)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=96.68  E-value=0.017  Score=35.95  Aligned_cols=66  Identities=3%  Similarity=-0.030  Sum_probs=41.1

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....++
T Consensus       160 ~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          160 KAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            456666666666666666666     56677777777777776666666666655544444 5555555444

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=96.60  E-value=0.02  Score=34.93  Aligned_cols=15  Identities=7%  Similarity=0.237  Sum_probs=5.9

Q ss_pred             cchHHHHHHHHHHHh
Q 041861           26 ALLTRVVEVFEQSMQ   40 (73)
Q Consensus        26 ~~~~~a~~V~erav~   40 (73)
                      |+.++|++.|++++.
T Consensus        91 ~~~~~A~~~~~~~~~  105 (225)
T 2vq2_A           91 NRPAESMAYFDKALA  105 (225)
T ss_dssp             CCHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHc
Confidence            333333333333333

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=96.59  E-value=0.024  Score=34.47  Aligned_cols=67  Identities=10%  Similarity=0.007  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.|...|-....|...+     .|+.++|++.+++++...|.+.+.|.......... +.+.....+.
T Consensus        25 ~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~   97 (184)
T 3vtx_A           25 IRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANFMIDEKQAAIDALQ   97 (184)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3567888888888888888877     67888888888888888887777777765555544 5444444433

>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=96.56  E-value=0.021  Score=36.84  Aligned_cols=68  Identities=7%  Similarity=-0.057  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        41 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  114 (327)
T 3cv0_A           41 ALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRA  114 (327)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4578899999999999998888     79999999999999999999999998877766655 77777766654

>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=96.56  E-value=0.021  Score=36.84  Aligned_cols=64  Identities=9%  Similarity=-0.008  Sum_probs=31.0

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+
T Consensus       194 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  263 (327)
T 3cv0_A          194 NLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQL  263 (327)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHH
Confidence            34444555555555554444     45555555555555555555555554444433333 444444433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=96.54  E-value=0.019  Score=37.32  Aligned_cols=68  Identities=4%  Similarity=-0.082  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        23 ~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~   96 (359)
T 3ieg_A           23 LSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKK   96 (359)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHH
Confidence            4578889999999999998888     89999999999999998898889888877766655 77777666654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=96.53  E-value=0.018  Score=37.39  Aligned_cols=68  Identities=3%  Similarity=-0.028  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.+++++...|.+.+.|.......... +.++....+++
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  213 (359)
T 3ieg_A          140 ITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRE  213 (359)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3567888889998888888888     78999999999999998899999888877766655 66666665554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.53  E-value=0.022  Score=31.50  Aligned_cols=48  Identities=6%  Similarity=0.004  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHccchHH-HHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHH
Q 041861            3 RLVYNSFLADFHLCYG-YWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWF   50 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~-YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~   50 (73)
                      ...|++.+...|-... .|...+     .|+.++|++.|++++..-|.+.+.|.
T Consensus        20 ~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~   73 (99)
T 2kc7_A           20 LQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQA   73 (99)
T ss_dssp             HHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHH
Confidence            4678999999999988 888888     89999999999999999999998883

>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=96.49  E-value=0.021  Score=33.51  Aligned_cols=67  Identities=4%  Similarity=-0.075  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH--Hhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL--ASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f--~~~~-~~~~~~~lf~   69 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|..+...  .... +.++....++
T Consensus        67 ~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  141 (166)
T 1a17_A           67 LGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  141 (166)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence            4578899999999999999888     8999999999999999999999988654433  2222 4444444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=96.49  E-value=0.017  Score=35.23  Aligned_cols=45  Identities=11%  Similarity=0.011  Sum_probs=22.4

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhcc-CcHHHH
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSAT-YSSDVW   49 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p-~SvdLW   49 (73)
                      .|++.+...|-....|...+     .|+.++|.+.+++++...| .+.+.|
T Consensus       135 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  185 (225)
T 2vq2_A          135 YLKRSLAAQPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDL  185 (225)
T ss_dssp             HHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHH
T ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34444555554444444444     4555555555555555555 444444

>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=96.48  E-value=0.021  Score=36.02  Aligned_cols=66  Identities=11%  Similarity=-0.062  Sum_probs=34.5

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHh--hccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQ--SATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~--~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|..++     .|+.++|++.|++++.  ..|...+.|.......... +.++....++
T Consensus        92 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  165 (252)
T 2ho1_A           92 EEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFE  165 (252)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            345555555555555555555     4556666666666655  4455555555544443333 4444444443

>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=96.46  E-value=0.025  Score=34.33  Aligned_cols=68  Identities=6%  Similarity=-0.088  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH------hcch--HHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC------CALL--TRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya------~~~~--~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|..++      .|+.  ++|++.|++++..-|.+.+.|.......... +.+.....+++
T Consensus        64 ~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~  140 (177)
T 2e2e_A           64 LLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQK  140 (177)
T ss_dssp             HHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            4578888999998888888877      4666  9999999999998899889888776655544 66666555543

>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=96.45  E-value=0.02  Score=37.91  Aligned_cols=68  Identities=3%  Similarity=-0.041  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        84 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  157 (368)
T 1fch_A           84 VLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRD  157 (368)
T ss_dssp             HHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4578899999999999998888     79999999999999999999999998887776666 77777776654

>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=96.42  E-value=0.025  Score=38.27  Aligned_cols=66  Identities=6%  Similarity=-0.028  Sum_probs=33.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|.+........ +.++....++
T Consensus       292 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (388)
T 1w3b_A          292 DCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344555555555555555444     45555555555555555555555555544444333 4444444443

>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=96.39  E-value=0.025  Score=36.53  Aligned_cols=66  Identities=12%  Similarity=-0.119  Sum_probs=36.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|.......... +.++....++
T Consensus       146 ~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  217 (330)
T 3hym_B          146 AAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFL  217 (330)
T ss_dssp             HHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHH
Confidence            345555555555555555444     55666666666666666666666666555554444 4444444443

>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=96.37  E-value=0.032  Score=30.49  Aligned_cols=53  Identities=4%  Similarity=-0.117  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ...+++.+...|-....|...+     .|+.++|.+.|++++..-|.+.+.|......
T Consensus        58 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           58 YEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            3578889999999888898888     8999999999999999999999988775543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=96.37  E-value=0.035  Score=30.80  Aligned_cols=55  Identities=2%  Similarity=-0.162  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|........
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  125 (131)
T 2vyi_A           66 VQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAEL  125 (131)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHH
Confidence            4578889999999999998888     899999999999999999999998887665443

>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=96.36  E-value=0.025  Score=38.27  Aligned_cols=52  Identities=12%  Similarity=0.068  Sum_probs=27.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++..-|...+.|.+....
T Consensus       122 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  178 (388)
T 1w3b_A          122 QAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCV  178 (388)
T ss_dssp             HHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            345555555555555555554     4555555555555555555555555544433

>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=96.33  E-value=0.028  Score=37.18  Aligned_cols=65  Identities=14%  Similarity=0.070  Sum_probs=37.6

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc-----------HHHHHHHHHHHhhc-Ccchhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS-----------SDVWFHYCNLASEV-PPDGHRK   66 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S-----------vdLW~~Yl~f~~~~-~~~~~~~   66 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+           .+.|.......... +.+....
T Consensus       272 ~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  351 (368)
T 1fch_A          272 AAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  351 (368)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHH
Confidence            445566666666555555555     566666666666666655555           56666655554444 5555544


Q ss_pred             hh
Q 041861           67 SE   68 (73)
Q Consensus        67 lf   68 (73)
                      +.
T Consensus       352 ~~  353 (368)
T 1fch_A          352 AD  353 (368)
T ss_dssp             HH
T ss_pred             hH
Confidence            43

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=96.33  E-value=0.027  Score=35.07  Aligned_cols=67  Identities=4%  Similarity=-0.172  Sum_probs=54.4

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..+++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          126 KKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            345666668888888888888     79999999999999999999999998877766655 77777766654

>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=96.32  E-value=0.03  Score=38.21  Aligned_cols=68  Identities=6%  Similarity=-0.068  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....|++
T Consensus        46 ~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  119 (450)
T 2y4t_A           46 LSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKK  119 (450)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4567888888888888888877     78888888888888888888888888777666655 77777666654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.30  E-value=0.018  Score=32.91  Aligned_cols=58  Identities=12%  Similarity=0.036  Sum_probs=34.6

Q ss_pred             ccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           13 FHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        13 fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|-....|...+     .|+.++|++.|++++..-|...+.|.......... +.++....+++
T Consensus         3 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~   66 (100)
T 3ma5_A            3 DPEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQ   66 (100)
T ss_dssp             --CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            355555566665     56777777777777776677777666655554444 55555554443

>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=96.27  E-value=0.024  Score=36.59  Aligned_cols=64  Identities=6%  Similarity=0.026  Sum_probs=30.6

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hc-chHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CA-LLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~-~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .+++.+...|-....|...+     .| ..++|++.|++++..-|...+.|.......... +.++....+
T Consensus        78 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  148 (330)
T 3hym_B           78 LSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAY  148 (330)
T ss_dssp             HHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHH
Confidence            34445555555555554444     34 455555555555555555555555444433333 444444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.27  E-value=0.047  Score=29.11  Aligned_cols=47  Identities=9%  Similarity=0.073  Sum_probs=24.6

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHH
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFH   51 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~   51 (73)
                      .|++.+...|-....|...+     .|+.++|++.|++++..-|...+.|.+
T Consensus        31 ~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~   82 (91)
T 1na3_A           31 YYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQN   82 (91)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            44555555555555555554     455555555555555555555554443

>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=96.26  E-value=0.014  Score=35.77  Aligned_cols=66  Identities=9%  Similarity=-0.073  Sum_probs=54.4

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|++.+..-|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus         9 ~~~~al~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   80 (148)
T 2vgx_A            9 TIAMLNEISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSY   80 (148)
T ss_dssp             SHHHHTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hHHHHHcCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            57778888888888888888     79999999999999999999999998877665555 66666666554

>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=96.26  E-value=0.03  Score=37.67  Aligned_cols=68  Identities=10%  Similarity=0.071  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-...+|...+     +|+.++|++.|++++..-|.+...|.......... +.++....+.+
T Consensus        24 ~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   97 (281)
T 2c2l_A           24 AACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQR   97 (281)
T ss_dssp             HHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678999999999999999988     89999999999999999999999998877666555 66666666554

>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=96.18  E-value=0.045  Score=34.45  Aligned_cols=45  Identities=0%  Similarity=-0.049  Sum_probs=31.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDV   48 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdL   48 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+.++
T Consensus        63 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~  112 (228)
T 4i17_A           63 DYFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATI  112 (228)
T ss_dssp             HHHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHH
T ss_pred             HHHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHH
Confidence            456667777777777777776     677777777777777777776644

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.16  E-value=0.026  Score=31.17  Aligned_cols=43  Identities=7%  Similarity=0.104  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS   45 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S   45 (73)
                      ...|++.+...|-....|...+     +|+.++|++.|++++..-|.+
T Consensus        24 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~   71 (111)
T 2l6j_A           24 VHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTA   71 (111)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSST
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc
Confidence            3568888888998888888888     788999999999999888876

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=96.15  E-value=0.0072  Score=36.21  Aligned_cols=66  Identities=5%  Similarity=-0.086  Sum_probs=50.8

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      +|++.+..-|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus         6 ~l~~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   77 (142)
T 2xcb_A            6 TLAMLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSY   77 (142)
T ss_dssp             ---CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hHHHHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            45556666777777777777     79999999999999999999999999877766655 77776666654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=96.13  E-value=0.043  Score=30.82  Aligned_cols=54  Identities=6%  Similarity=0.002  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLA   56 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~   56 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......
T Consensus        70 ~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  128 (133)
T 2lni_A           70 LKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCM  128 (133)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4578889999999999999988     79999999999999999998888887655443

>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=96.10  E-value=0.04  Score=33.91  Aligned_cols=67  Identities=7%  Similarity=-0.054  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc--HHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS--SDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S--vdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.+...|-....|..++     .|+.++|++.|++++..-|..  .+.|.......... +.++....+.
T Consensus        94 ~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A           94 LKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            3568888999999999999888     799999999999999988865  44787776655554 6665555444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.10  E-value=0.035  Score=29.63  Aligned_cols=55  Identities=9%  Similarity=0.184  Sum_probs=43.7

Q ss_pred             hHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           16 CYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        16 ~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ....|...+     .++.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~   68 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQK   68 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            345566655     79999999999999999999999998887766666 77777776654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=96.10  E-value=0.035  Score=39.38  Aligned_cols=67  Identities=10%  Similarity=0.098  Sum_probs=36.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..+++.+...|-....|...+     .|+.++|+++|++++..-|.+++.|.......... +.++..++|++
T Consensus       360 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  432 (597)
T 2xpi_A          360 LISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTT  432 (597)
T ss_dssp             HHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344455555555555555554     55666666666666665555566666555444444 55555555543

>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=96.10  E-value=0.031  Score=38.90  Aligned_cols=67  Identities=7%  Similarity=-0.095  Sum_probs=39.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|.......... +.++....+++
T Consensus       331 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  403 (537)
T 3fp2_A          331 EDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDI  403 (537)
T ss_dssp             HHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            445566666666666666555     56666666666666666666666666665555544 55555554443

>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=96.07  E-value=0.03  Score=38.23  Aligned_cols=68  Identities=3%  Similarity=-0.033  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|+++|++++..-|.+.+.|.......... +.++....+++
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          163 IAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3567788888888888887777     78888888888888888888888888777666655 66666666654

>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=96.03  E-value=0.062  Score=33.78  Aligned_cols=68  Identities=4%  Similarity=-0.045  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHcc-chHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFH-LCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fP-l~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...| -....|...+     .|+.++|++.|++++..-|...+.|.......... +.++....+++
T Consensus        27 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  101 (228)
T 4i17_A           27 FEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTE  101 (228)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            357888999888 6666666666     89999999999999999999999999887776666 77766666554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=95.99  E-value=0.03  Score=35.54  Aligned_cols=65  Identities=8%  Similarity=0.034  Sum_probs=43.2

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHH-HHHhhcCcchhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYC-NLASEVPPDGHRKSE   68 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl-~f~~~~~~~~~~~lf   68 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.... ......+.++....+
T Consensus        95 ~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           95 QQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             HHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            457777777777777777777     67788888888888777777777776655 332222444444433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=95.98  E-value=0.044  Score=34.88  Aligned_cols=53  Identities=11%  Similarity=0.083  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ...|++.|+..|-....|...+     .|+.++|++.|++++.--|.+.+.|.+....
T Consensus        74 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~  131 (208)
T 3urz_A           74 YLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNY  131 (208)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            4679999999999999999999     8999999999999999999999999876544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.94  E-value=0.06  Score=30.88  Aligned_cols=54  Identities=6%  Similarity=-0.132  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLA   56 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~   56 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.++|.......
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A           85 ETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            4578889999999888888888     89999999999999999999999998765543

>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=95.94  E-value=0.066  Score=32.99  Aligned_cols=68  Identities=1%  Similarity=-0.069  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH----------------HHHHHHHHHHhhc-C
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS----------------DVWFHYCNLASEV-P   60 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv----------------dLW~~Yl~f~~~~-~   60 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++...|.+.                +.|.+........ +
T Consensus        57 ~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  136 (213)
T 1hh8_A           57 EKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEE  136 (213)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccC
Confidence            3567788888888888888877     7888888888888888666443                6666555444433 5


Q ss_pred             cchhhhhhhh
Q 041861           61 PDGHRKSEYQ   70 (73)
Q Consensus        61 ~~~~~~lf~~   70 (73)
                      .++....+++
T Consensus       137 ~~~A~~~~~~  146 (213)
T 1hh8_A          137 WKKAEEQLAL  146 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=95.89  E-value=0.065  Score=34.29  Aligned_cols=65  Identities=6%  Similarity=-0.121  Sum_probs=40.2

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+...|-....|...+     .|..++|++.|++++.-- .+.+.|.+........ +.++....++
T Consensus       105 ~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~  175 (217)
T 2pl2_A          105 SVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSALAELYLSMGRLDEALAQYA  175 (217)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            456777777777777777666     566777777777777654 5666666655544443 4444444443

>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=95.88  E-value=0.037  Score=40.23  Aligned_cols=64  Identities=6%  Similarity=-0.086  Sum_probs=31.0

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      .|++.+...|-....|..++     .|+.++|++.|+++++.-|.+.+.|.+........ +.++....+
T Consensus        45 ~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~  114 (568)
T 2vsy_A           45 AVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAY  114 (568)
T ss_dssp             HHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44445555555555555444     45555555555555555555555555444433333 444443333

>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=95.87  E-value=0.052  Score=38.96  Aligned_cols=67  Identities=12%  Similarity=0.109  Sum_probs=50.7

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcc-hHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CAL-LTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~-~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.|...|-....|...+     +|. .++|++.|++++.--|.+.+.|.+--...... +.++....+++
T Consensus       118 ~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~k  191 (382)
T 2h6f_A          118 KLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIAD  191 (382)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHH
T ss_pred             HHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            567888888888888888777     674 88888888888888888888888766655544 55555555543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=95.80  E-value=0.048  Score=38.68  Aligned_cols=67  Identities=1%  Similarity=-0.174  Sum_probs=37.2

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.+...|-....|...+     .|+.++|+++|++++...|.+.+.|.......... +.++..++|++
T Consensus       394 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  466 (597)
T 2xpi_A          394 RYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQS  466 (597)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            445555666666555665555     55666666666666665555555555544433333 55555554443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.74  E-value=0.046  Score=30.14  Aligned_cols=46  Identities=9%  Similarity=-0.003  Sum_probs=38.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++++..-|.+.+.|.+........ +.++....+++
T Consensus        17 ~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   63 (111)
T 2l6j_A           17 QGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQ   63 (111)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            79999999999999999999999999887766655 66666665554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=95.74  E-value=0.018  Score=31.35  Aligned_cols=46  Identities=13%  Similarity=0.166  Sum_probs=39.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        19 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~   65 (112)
T 2kck_A           19 AGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNY   65 (112)
T ss_dssp             SCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            78999999999999999999999999888777666 77777776654

>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=95.70  E-value=0.057  Score=42.22  Aligned_cols=67  Identities=12%  Similarity=0.119  Sum_probs=41.1

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.|+..|-....|...+     +|..++|++.|++|++--|...+.|.+........ +.++..+.+++
T Consensus        30 ~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~k  102 (723)
T 4gyw_A           30 RLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQCYTR  102 (723)
T ss_dssp             HHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            456666666666666666666     56666666666666666666666666655555544 55555554443

>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=95.68  E-value=0.023  Score=34.66  Aligned_cols=65  Identities=3%  Similarity=-0.267  Sum_probs=48.8

Q ss_pred             HHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            6 YNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         6 Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      |++-+..-|-....|...+     .|+.++|++.|++++.--|.+.+.|.......... +.++....|++
T Consensus        20 ~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~   90 (150)
T 4ga2_A           20 VQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAVECYRR   90 (150)
T ss_dssp             HHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHHHHH
Confidence            3344444454455555555     79999999999999999999999999887777666 77777776654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=95.66  E-value=0.05  Score=31.33  Aligned_cols=47  Identities=9%  Similarity=-0.014  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVW   49 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW   49 (73)
                      ...|++.+..+|-....|..++     .|+.++|++.|++++...|.+.++.
T Consensus        47 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           47 EAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            4578999999999999999988     8999999999999999999887765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=95.64  E-value=0.092  Score=36.08  Aligned_cols=67  Identities=13%  Similarity=0.003  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...| ....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....|++
T Consensus        26 ~~~~~~al~~~p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   98 (514)
T 2gw1_A           26 IKYYNWALELKE-DPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSV   98 (514)
T ss_dssp             HHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCc-cHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            467899999999 577787777     89999999999999999999999998877766666 77777766654

>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=95.63  E-value=0.064  Score=37.30  Aligned_cols=67  Identities=7%  Similarity=-0.040  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....|+
T Consensus        45 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~  117 (537)
T 3fp2_A           45 IKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLS  117 (537)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4679999999999999999988     89999999999999999999999998877776655 7776666553

>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=95.55  E-value=0.091  Score=32.66  Aligned_cols=47  Identities=13%  Similarity=-0.025  Sum_probs=21.3

Q ss_pred             HHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHH
Q 041861            6 YNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHY   52 (73)
Q Consensus         6 Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Y   52 (73)
                      |++.+...|-....|...+     +|+.++|++.|++++.--|.+.++|...
T Consensus       111 ~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l  162 (198)
T 2fbn_A          111 ASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSY  162 (198)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            3444444444444444444     4444444444444444444444444433

>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=95.54  E-value=0.1  Score=36.08  Aligned_cols=38  Identities=3%  Similarity=-0.018  Sum_probs=18.7

Q ss_pred             HHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861           18 GYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus        18 ~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ..|...+     +|+.++|++.|++++..-|.+.+.|......
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~  239 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEA  239 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            4444444     4555555555555555555555544444333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=95.47  E-value=0.016  Score=36.51  Aligned_cols=65  Identities=6%  Similarity=-0.177  Sum_probs=50.8

Q ss_pred             HHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            6 YNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         6 Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      +++.|...|-...-|...+     .|..++|++.|++++..-|.+.+.|.+-....... +.++....|++
T Consensus        25 l~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~   95 (151)
T 3gyz_A           25 LKDINAIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAV   95 (151)
T ss_dssp             TGGGCCSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHH
Confidence            3445566677777888777     79999999999999999999999999876665555 66666666554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=95.46  E-value=0.16  Score=30.50  Aligned_cols=54  Identities=7%  Similarity=0.012  Sum_probs=32.7

Q ss_pred             ccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhh
Q 041861           13 FHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRK   66 (73)
Q Consensus        13 fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~   66 (73)
                      -|.....|...+     +|+.++|++.+++++.--|.+...|.......... +.++...
T Consensus        59 ~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~  118 (162)
T 3rkv_A           59 DRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEE  118 (162)
T ss_dssp             HHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHH
Confidence            555566666666     67777777777777776677666666554444333 4444333

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=95.42  E-value=0.079  Score=30.02  Aligned_cols=49  Identities=10%  Similarity=0.014  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHccch---HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHH
Q 041861            3 RLVYNSFLADFHLC---YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFH   51 (73)
Q Consensus         3 r~~Y~~fL~~fPl~---~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~   51 (73)
                      ...|++.+..+|-.   ...+...+     .|+.++|++.|++++...|.+...+..
T Consensus        59 ~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a  115 (129)
T 2xev_A           59 EAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVA  115 (129)
T ss_dssp             HHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHH
T ss_pred             HHHHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCChHHHHH
Confidence            46789999999987   66677776     899999999999999999988776543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=95.40  E-value=0.076  Score=38.38  Aligned_cols=68  Identities=9%  Similarity=-0.050  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----h--------cchHHHHHHHHHHHhhcc---CcHHHHHHHHHHHhhc-Ccchhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----C--------ALLTRVVEVFEQSMQSAT---YSSDVWFHYCNLASEV-PPDGHR   65 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~--------~~~~~a~~V~erav~~~p---~SvdLW~~Yl~f~~~~-~~~~~~   65 (73)
                      ...|++.+...|-....|..++     .        |+.++|++.|++++..-|   ...+.|.+........ +.++..
T Consensus       199 ~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~  278 (474)
T 4abn_A          199 VRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEAL  278 (474)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHH
Confidence            3567778888888888888777     4        778888888888888777   7788887777666655 666666


Q ss_pred             hhhhh
Q 041861           66 KSEYQ   70 (73)
Q Consensus        66 ~lf~~   70 (73)
                      ..+++
T Consensus       279 ~~~~~  283 (474)
T 4abn_A          279 EGFSQ  283 (474)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65554

>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=95.36  E-value=0.047  Score=39.65  Aligned_cols=68  Identities=6%  Similarity=-0.128  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.++..|-....|...+     .|+.++|++.|+++++.-|.+.+.|.+........ +.++....+++
T Consensus         9 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   82 (568)
T 2vsy_A            9 LLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQ   82 (568)
T ss_dssp             ------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3568888999999999999988     79999999999999999999999999888777666 77777776654

>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=95.35  E-value=0.09  Score=30.08  Aligned_cols=57  Identities=2%  Similarity=-0.041  Sum_probs=44.6

Q ss_pred             cchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           14 HLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        14 Pl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      |.....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.+.....+++
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~   68 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRR   68 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            34445566666     79999999999999999999999999888776665 66666665554

>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=95.33  E-value=0.14  Score=29.36  Aligned_cols=52  Identities=6%  Similarity=0.001  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhc------cCcHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSA------TYSSDVWFHYCN   54 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~------p~SvdLW~~Yl~   54 (73)
                      ...|++.+...|-....|...+     +|+.++|++.|++++.--      |.+.+++.....
T Consensus        58 ~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~  120 (126)
T 3upv_A           58 IADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  120 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHH
Confidence            4578999999999999999998     899999999999999988      887777765443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=95.33  E-value=0.094  Score=33.05  Aligned_cols=67  Identities=10%  Similarity=-0.053  Sum_probs=53.4

Q ss_pred             HHHHHHHHHc----cchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADF----HLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~f----Pl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.+...    |-....|...+     .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  102 (275)
T 1xnf_A           26 ARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDS  102 (275)
T ss_dssp             HHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            4677777763    55667777777     79999999999999999999999999887776666 77777776654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=95.33  E-value=0.08  Score=36.39  Aligned_cols=67  Identities=6%  Similarity=-0.091  Sum_probs=44.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++...|.+.+.|.......... +.++....+++
T Consensus       325 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          325 KDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             HHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            456667777777666676666     67777777777777777777777777666555544 55655555543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=95.31  E-value=0.091  Score=31.27  Aligned_cols=51  Identities=4%  Similarity=-0.078  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYC   53 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl   53 (73)
                      ...|++.|..-|-....|...+     +|+.++|++.|+++++--|.+.+.+...-
T Consensus        67 ~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~  122 (126)
T 4gco_A           67 LDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVR  122 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHH
Confidence            3578899999999999999998     89999999999999999999999887654

>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=95.31  E-value=0.097  Score=38.23  Aligned_cols=68  Identities=3%  Similarity=-0.090  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.++..|-....|...+     .|+.++|++.|++|++.-|.+.+.|.+........ +.+++...+++
T Consensus        26 ~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~   99 (477)
T 1wao_1           26 IKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYET   99 (477)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3567888888888888888888     78888888888888888888888887766555444 66666555544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=95.26  E-value=0.16  Score=27.72  Aligned_cols=52  Identities=10%  Similarity=0.044  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCN   54 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~   54 (73)
                      ...|++.+...|-....|...+     .|+.++|.+.|++++..-|.+.+.+.....
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  119 (125)
T 1na0_A           63 IEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGN  119 (125)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            3568888999998888888888     799999999999999998988887766443

>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=95.24  E-value=0.1  Score=40.80  Aligned_cols=52  Identities=6%  Similarity=0.045  Sum_probs=24.8

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHH
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLA   56 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~   56 (73)
                      .|++.|+..|-....|...+     +|+.++|++.|++|++--|.+.+.|.+.....
T Consensus        65 ~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~  121 (723)
T 4gyw_A           65 HYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIH  121 (723)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            44444555555555554444     44444444445544444444444444443333

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=94.97  E-value=0.07  Score=32.21  Aligned_cols=49  Identities=8%  Similarity=-0.044  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFH   51 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~   51 (73)
                      ...|++.+...|-....|...+     +|+.++|++.|++++.--|...+.|..
T Consensus        65 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  118 (164)
T 3sz7_A           65 AEDAELATVVDPKYSKAWSRLGLARFDMADYKGAKEAYEKGIEAEGNGGSDAMK  118 (164)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHH
Confidence            4578999999999999999998     899999999999999999998886644

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=94.94  E-value=0.069  Score=33.85  Aligned_cols=37  Identities=14%  Similarity=0.007  Sum_probs=19.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQ   40 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~   40 (73)
                      ..|++.+...|-....|...+     .|+.++|++.|++++.
T Consensus        24 ~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   65 (272)
T 3u4t_A           24 EVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS   65 (272)
T ss_dssp             HHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            345555555555555555544     4555555555555555

>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=94.74  E-value=0.21  Score=30.99  Aligned_cols=54  Identities=2%  Similarity=-0.026  Sum_probs=42.2

Q ss_pred             HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           17 YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        17 ~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|...+     .|+.++|++.+++++..-|.+.+.|.......... +.+.....|++
T Consensus        88 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           88 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            45566666     89999999999999999999999888777665555 66766666654

>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=94.72  E-value=0.12  Score=36.97  Aligned_cols=47  Identities=11%  Similarity=0.245  Sum_probs=26.4

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHH
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFH   51 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~   51 (73)
                      .|++.|...|-.+..|...+     +|+.++|++.|++++.--|.+.+.|.+
T Consensus       154 ~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~  205 (382)
T 2h6f_A          154 YITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQH  205 (382)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHH
Confidence            45555555565555555555     455555555555555555555555544

>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=94.63  E-value=0.17  Score=28.00  Aligned_cols=46  Identities=4%  Similarity=-0.065  Sum_probs=37.8

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++++...|.+.+.|.......... +.++....+++
T Consensus        17 ~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~   63 (131)
T 1elr_A           17 KKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEK   63 (131)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            78999999999999999999999998877766555 77776666554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=94.60  E-value=0.14  Score=30.14  Aligned_cols=46  Identities=15%  Similarity=0.045  Sum_probs=37.9

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++++..-|.+.+.|.......... +.++....+++
T Consensus        30 ~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~   76 (121)
T 1hxi_A           30 LANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNH   76 (121)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            79999999999999999999999999877666655 66666665554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=94.58  E-value=0.26  Score=32.93  Aligned_cols=63  Identities=5%  Similarity=-0.005  Sum_probs=50.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc--HHHHHHHHHHHhhc-Ccchhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS--SDVWFHYCNLASEV-PPDGHRK   66 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S--vdLW~~Yl~f~~~~-~~~~~~~   66 (73)
                      ..|++.+...|-....|..++     .|+.++|++.|+++++.-|..  .+.|.+........ +.+....
T Consensus       206 ~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~  276 (287)
T 3qou_A          206 QQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALAS  276 (287)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHH
Confidence            467888999999999999998     789999999999999988877  77888887777766 4444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=94.51  E-value=0.061  Score=30.55  Aligned_cols=45  Identities=7%  Similarity=0.101  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD   47 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd   47 (73)
                      ...|++.+...|-....|...+     +|+.++|++.|++++.-.|..-+
T Consensus        27 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~   76 (100)
T 3ma5_A           27 LALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGT   76 (100)
T ss_dssp             HHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCc
Confidence            4678999999999999999999     89999999999999987664433

>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=94.42  E-value=0.16  Score=38.60  Aligned_cols=66  Identities=6%  Similarity=-0.070  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.++..|-....|...+     .|+.++|++.|+++++.-|.+.+.|.+........ +.++ ...++
T Consensus       453 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~  524 (681)
T 2pzi_A          453 TRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQ  524 (681)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHH
T ss_pred             HHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHH
Confidence            3568888888888888888777     78899999999999988888888888776655544 5555 44443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.37  E-value=0.11  Score=28.49  Aligned_cols=46  Identities=9%  Similarity=0.100  Sum_probs=37.4

Q ss_pred             hcchHHHHHHHHHHHhhccCcHH-HHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSD-VWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~Svd-LW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++++..-|.+.+ .|.......... +.++....|++
T Consensus        13 ~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~   60 (99)
T 2kc7_A           13 QGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQS   60 (99)
T ss_dssp             HTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            78999999999999999999999 988876665555 67776666654

>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=94.28  E-value=0.16  Score=30.01  Aligned_cols=44  Identities=7%  Similarity=0.119  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS   46 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv   46 (73)
                      ...|++-|...|-....|...+     +|+.++|++.|++|+.--|.+.
T Consensus        28 ~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~   76 (127)
T 4gcn_A           28 HVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETR   76 (127)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccc
Confidence            3578899999999999999888     8999999999999998666544

>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=94.27  E-value=0.23  Score=30.96  Aligned_cols=67  Identities=3%  Similarity=-0.155  Sum_probs=50.8

Q ss_pred             HHHHHHHHHc--------cchHHHHHHHH-----hcchHHHHHHHHHHHhh--------ccCcHHHHHHHHHHHhhc-Cc
Q 041861            4 LVYNSFLADF--------HLCYGYWRKAC-----CALLTRVVEVFEQSMQS--------ATYSSDVWFHYCNLASEV-PP   61 (73)
Q Consensus         4 ~~Y~~fL~~f--------Pl~~~YWkkya-----~~~~~~a~~V~erav~~--------~p~SvdLW~~Yl~f~~~~-~~   61 (73)
                      ..|++.+..+        |.....+...+     .|+.++|++.|++++..        -|.....+.......... +.
T Consensus       106 ~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  185 (283)
T 3edt_B          106 PLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKY  185 (283)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCH
Confidence            4566777664        88888888888     79999999999999997        565667777766666555 77


Q ss_pred             chhhhhhhh
Q 041861           62 DGHRKSEYQ   70 (73)
Q Consensus        62 ~~~~~lf~~   70 (73)
                      ++....+++
T Consensus       186 ~~A~~~~~~  194 (283)
T 3edt_B          186 QDAETLYKE  194 (283)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>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=94.25  E-value=0.24  Score=34.13  Aligned_cols=57  Identities=7%  Similarity=-0.154  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.|...|-....|...+     +|+.++|++.|++++.--|.+.+.|..........
T Consensus       216 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~  277 (336)
T 1p5q_A          216 IESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  277 (336)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999988     89999999999999999999999888766555444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=94.22  E-value=0.26  Score=31.35  Aligned_cols=68  Identities=9%  Similarity=-0.057  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHccchHHHHH-----------------HHH-----hcchHHHHHHHHHHHhhccCcH---HHHHHHHHHHh
Q 041861            3 RLVYNSFLADFHLCYGYWR-----------------KAC-----CALLTRVVEVFEQSMQSATYSS---DVWFHYCNLAS   57 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWk-----------------kya-----~~~~~~a~~V~erav~~~p~Sv---dLW~~Yl~f~~   57 (73)
                      ...|++++..||-....|.                 ..+     .|+.++|+..|++++...|.+.   +.|..-.....
T Consensus       116 ~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~  195 (225)
T 2yhc_A          116 FSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYR  195 (225)
T ss_dssp             HHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHH
Confidence            3578999999998766553                 122     7899999999999999999875   45655444444


Q ss_pred             hc-Ccchhhhhhhh
Q 041861           58 EV-PPDGHRKSEYQ   70 (73)
Q Consensus        58 ~~-~~~~~~~lf~~   70 (73)
                      .. +.++....+++
T Consensus       196 ~~g~~~~A~~~~~~  209 (225)
T 2yhc_A          196 QMQMNAQAEKVAKI  209 (225)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HcCCcHHHHHHHHH
Confidence            44 77777776665

>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=94.20  E-value=0.32  Score=35.08  Aligned_cols=66  Identities=6%  Similarity=0.053  Sum_probs=39.4

Q ss_pred             HHHHHHHHHccch---------------HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccc
Q 041861            4 LVYNSFLADFHLC---------------YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPD   62 (73)
Q Consensus         4 ~~Y~~fL~~fPl~---------------~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~   62 (73)
                      ..|++.|...|..               ...|...+     +++.++|++.|++++..-|.+...|.......... +.+
T Consensus       289 ~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~  368 (457)
T 1kt0_A          289 IQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFE  368 (457)
T ss_dssp             HHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHH
Confidence            4566666666665               45565555     66777777777777776666666666555444443 444


Q ss_pred             hhhhhhh
Q 041861           63 GHRKSEY   69 (73)
Q Consensus        63 ~~~~lf~   69 (73)
                      ++...|+
T Consensus       369 ~A~~~~~  375 (457)
T 1kt0_A          369 SAKGDFE  375 (457)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=94.18  E-value=0.34  Score=32.68  Aligned_cols=68  Identities=6%  Similarity=-0.068  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHccchH-----HHHHHHH--hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCY-----GYWRKAC--CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~-----~YWkkya--~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-..     .-|....  .|..++|.++|++++...|.+.++|.+-....... +.++....+++
T Consensus       150 ~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~  225 (291)
T 3mkr_A          150 RKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQE  225 (291)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            456888888888542     2355544  47899999999999999999999999877766655 77777766654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=94.13  E-value=0.32  Score=33.57  Aligned_cols=52  Identities=8%  Similarity=0.038  Sum_probs=32.0

Q ss_pred             HHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           19 YWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        19 YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|...+     +++.++|++.|++++..-|.+...|.......... +.+.....+++
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~  289 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRK  289 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455555     56777777777777776676777666655554444 55555554443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=94.11  E-value=0.2  Score=32.19  Aligned_cols=43  Identities=5%  Similarity=-0.161  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHccch---HHHHHHHH-----hcchHHHHHHHHHHHhhccCc
Q 041861            3 RLVYNSFLADFHLC---YGYWRKAC-----CALLTRVVEVFEQSMQSATYS   45 (73)
Q Consensus         3 r~~Y~~fL~~fPl~---~~YWkkya-----~~~~~~a~~V~erav~~~p~S   45 (73)
                      ...|++++..+|-.   ...|...+     .|+.++|++.|++++...|.+
T Consensus        35 ~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~   85 (261)
T 3qky_A           35 IEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQID   85 (261)
T ss_dssp             HHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCC
Confidence            45788999998877   67777766     899999999999999988854

>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=93.93  E-value=0.34  Score=34.27  Aligned_cols=58  Identities=3%  Similarity=-0.111  Sum_probs=38.5

Q ss_pred             HccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861           12 DFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus        12 ~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      .-|.....|...|     +++.++|++.|++++..-|.+.+.|.......... +.++....++
T Consensus       268 ~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~  331 (370)
T 1ihg_A          268 LQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLK  331 (370)
T ss_dssp             GHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            5566667777777     67778888888888877777777776665554444 5555544443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=93.89  E-value=0.28  Score=32.78  Aligned_cols=35  Identities=3%  Similarity=-0.294  Sum_probs=20.7

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQS   38 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~era   38 (73)
                      ..|++.|...|-....|...+     .|..++|++.++++
T Consensus       138 ~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~  177 (287)
T 3qou_A          138 PLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTI  177 (287)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTS
T ss_pred             HHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            456667777776666666666     45555554444444

>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=93.83  E-value=0.35  Score=30.11  Aligned_cols=67  Identities=6%  Similarity=-0.073  Sum_probs=50.7

Q ss_pred             HHHHHHHHHc--------cchHHHHHHHH-----hcchHHHHHHHHHHHhhc--------cCcHHHHHHHHHHHhhc-Cc
Q 041861            4 LVYNSFLADF--------HLCYGYWRKAC-----CALLTRVVEVFEQSMQSA--------TYSSDVWFHYCNLASEV-PP   61 (73)
Q Consensus         4 ~~Y~~fL~~f--------Pl~~~YWkkya-----~~~~~~a~~V~erav~~~--------p~SvdLW~~Yl~f~~~~-~~   61 (73)
                      ..|++.+..+        |.....|...+     .|+.++|++.|++++...        |...+.+.+........ +.
T Consensus        64 ~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  143 (283)
T 3edt_B           64 HLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKA  143 (283)
T ss_dssp             HHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCH
Confidence            4567777664        77788888888     799999999999999864        66677777766666555 77


Q ss_pred             chhhhhhhh
Q 041861           62 DGHRKSEYQ   70 (73)
Q Consensus        62 ~~~~~lf~~   70 (73)
                      ++....+++
T Consensus       144 ~~A~~~~~~  152 (283)
T 3edt_B          144 EEVEYYYRR  152 (283)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=93.61  E-value=0.34  Score=30.78  Aligned_cols=67  Identities=3%  Similarity=-0.154  Sum_probs=50.5

Q ss_pred             HHHHHHHHHc--------cchHHHHHHHH-----hcchHHHHHHHHHHHhh--------ccCcHHHHHHHHHHHhhc-Cc
Q 041861            4 LVYNSFLADF--------HLCYGYWRKAC-----CALLTRVVEVFEQSMQS--------ATYSSDVWFHYCNLASEV-PP   61 (73)
Q Consensus         4 ~~Y~~fL~~f--------Pl~~~YWkkya-----~~~~~~a~~V~erav~~--------~p~SvdLW~~Yl~f~~~~-~~   61 (73)
                      ..|++.+..+        |.....|...+     .|+.++|++.|++++..        -|.....|.......... +.
T Consensus       132 ~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  211 (311)
T 3nf1_A          132 PLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKF  211 (311)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCH
Confidence            4566667665        77777888877     79999999999999996        566666777766665555 77


Q ss_pred             chhhhhhhh
Q 041861           62 DGHRKSEYQ   70 (73)
Q Consensus        62 ~~~~~lf~~   70 (73)
                      ++....+++
T Consensus       212 ~~A~~~~~~  220 (311)
T 3nf1_A          212 KQAETLYKE  220 (311)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=93.59  E-value=0.19  Score=28.38  Aligned_cols=42  Identities=10%  Similarity=-0.072  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccC
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATY   44 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~   44 (73)
                      ...|++.+...|-....|..++     .|+.++|++.|++++...|.
T Consensus        39 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~   85 (115)
T 2kat_A           39 LPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQS   85 (115)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            4678999999999999999888     89999999999999997774

>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=93.34  E-value=0.33  Score=28.58  Aligned_cols=46  Identities=2%  Similarity=-0.098  Sum_probs=36.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++|+.--|...+.|.+-....... +.++....+++
T Consensus        21 ~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~   67 (127)
T 4gcn_A           21 QKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEK   67 (127)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHH
Confidence            78999999999999999999999998766555544 66665555443

>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=93.28  E-value=0.29  Score=37.16  Aligned_cols=67  Identities=6%  Similarity=-0.082  Sum_probs=55.4

Q ss_pred             HHHHHHH--------HHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            4 LVYNSFL--------ADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         4 ~~Y~~fL--------~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ..|++.+        ...|-....|...+     .|+.++|++.|+++++.-|.+.+.|.+........ +.++....|+
T Consensus       412 ~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  491 (681)
T 2pzi_A          412 DSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFT  491 (681)
T ss_dssp             HHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4677788        88899999999888     89999999999999999999999999877665555 7777777666


Q ss_pred             h
Q 041861           70 Q   70 (73)
Q Consensus        70 ~   70 (73)
                      +
T Consensus       492 ~  492 (681)
T 2pzi_A          492 E  492 (681)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=93.20  E-value=0.48  Score=30.07  Aligned_cols=67  Identities=6%  Similarity=-0.095  Sum_probs=50.2

Q ss_pred             HHHHHHHHHc--------cchHHHHHHHH-----hcchHHHHHHHHHHHhhc--------cCcHHHHHHHHHHHhhc-Cc
Q 041861            4 LVYNSFLADF--------HLCYGYWRKAC-----CALLTRVVEVFEQSMQSA--------TYSSDVWFHYCNLASEV-PP   61 (73)
Q Consensus         4 ~~Y~~fL~~f--------Pl~~~YWkkya-----~~~~~~a~~V~erav~~~--------p~SvdLW~~Yl~f~~~~-~~   61 (73)
                      ..|++.+..+        |.....|...+     .|+.++|++.|++++...        |.....|.......... +.
T Consensus        90 ~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  169 (311)
T 3nf1_A           90 NLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKY  169 (311)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCH
Confidence            4566777664        77777888877     899999999999999865        66666777776666655 77


Q ss_pred             chhhhhhhh
Q 041861           62 DGHRKSEYQ   70 (73)
Q Consensus        62 ~~~~~lf~~   70 (73)
                      ++....+++
T Consensus       170 ~~A~~~~~~  178 (311)
T 3nf1_A          170 EEVEYYYQR  178 (311)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=92.95  E-value=0.58  Score=29.97  Aligned_cols=48  Identities=10%  Similarity=-0.008  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHcc---chHHHHHHHH-------------hcchHHHHHHHHHHHhhccCcHHHHH
Q 041861            3 RLVYNSFLADFH---LCYGYWRKAC-------------CALLTRVVEVFEQSMQSATYSSDVWF   50 (73)
Q Consensus         3 r~~Y~~fL~~fP---l~~~YWkkya-------------~~~~~~a~~V~erav~~~p~SvdLW~   50 (73)
                      ...|++++..+|   ....-+...+             .|+.++|++.|++++...|.+...+.
T Consensus        72 ~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  135 (261)
T 3qky_A           72 ASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDD  135 (261)
T ss_dssp             HHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             HHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHH
Confidence            467999999988   4444444444             36799999999999999999877663

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=92.87  E-value=0.44  Score=34.35  Aligned_cols=57  Identities=9%  Similarity=-0.150  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHcc---chHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFH---LCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fP---l~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.+...|   -....|...+     .|+.++|++.|++++..-|...+.|..........
T Consensus       241 ~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~l  305 (474)
T 4abn_A          241 LSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFL  305 (474)
T ss_dssp             HHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            457889999999   8999999998     89999999999999999999999888776655443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=92.32  E-value=0.2  Score=34.68  Aligned_cols=53  Identities=9%  Similarity=-0.065  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ...|++.|...|-....|...+     +|+.++|++.|++++.--|.+.+.+......
T Consensus       250 ~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l  307 (338)
T 2if4_A          250 IGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRAL  307 (338)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            4578999999999999999888     8999999999999999889888887765443

>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=92.14  E-value=0.15  Score=31.16  Aligned_cols=47  Identities=4%  Similarity=-0.140  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWF   50 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~   50 (73)
                      ...|++.+...|-....|..++     .|+.++|++.|++++..-| +.+.+.
T Consensus        26 ~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~   77 (176)
T 2r5s_A           26 LNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ-DNSYKS   77 (176)
T ss_dssp             HHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC-CHHHHH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC-ChHHHH
Confidence            3567777888888888888888     7888899999998888777 665443

>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=92.11  E-value=0.67  Score=28.31  Aligned_cols=55  Identities=13%  Similarity=-0.007  Sum_probs=43.4

Q ss_pred             hHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           16 CYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        16 ~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ....|...+     .|+.++|++.|++++..-|.+.+.|.+........ +.++....+++
T Consensus        36 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~   96 (213)
T 1hh8_A           36 HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKE   96 (213)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            345666666     79999999999999999999999998887776665 77766666554

>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=91.64  E-value=0.71  Score=30.76  Aligned_cols=53  Identities=2%  Similarity=-0.016  Sum_probs=41.9

Q ss_pred             HHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           18 GYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        18 ~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|+..+     .|+.++|++.|++++..-|.+.++|.+........ +.+++...+++
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~   63 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRR   63 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            4455555     79999999999999999999999999887776665 76666665554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=91.48  E-value=1.3  Score=26.25  Aligned_cols=49  Identities=8%  Similarity=-0.116  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcH-HHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSS-DVWFH   51 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~Sv-dLW~~   51 (73)
                      ...+++.|..-|-....|...+     +|+.++|++.|++++.--|.+. .++..
T Consensus        83 ~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~  137 (162)
T 3rkv_A           83 EETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVARE  137 (162)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            3568889999999999999888     8999999999999999999877 44433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=91.20  E-value=0.8  Score=31.40  Aligned_cols=49  Identities=8%  Similarity=0.061  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFH   51 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~   51 (73)
                      ...|++.+...|-....|...+     .|..++|++.|++++..-|.+.++|.+
T Consensus       233 ~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  286 (472)
T 4g1t_A          233 EKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHH
Confidence            4567888888999999888888     789999999999999999998887754

>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=90.79  E-value=0.43  Score=34.78  Aligned_cols=53  Identities=6%  Similarity=-0.051  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ...|++.++..|-....|...+     +|+.++|++.|++|++.-|.+.+.|......
T Consensus        60 ~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~  117 (477)
T 1wao_1           60 LGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQEC  117 (477)
T ss_dssp             HHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            4578899999999999999988     8999999999999999999988888876554

>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=90.77  E-value=0.29  Score=35.52  Aligned_cols=68  Identities=9%  Similarity=0.086  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHccch--HHHHHHHH----------hcchHHHHHHHHHHHhhccC-cHHHHHHHHHHHhhc--Ccchhhhh
Q 041861            3 RLVYNSFLADFHLC--YGYWRKAC----------CALLTRVVEVFEQSMQSATY-SSDVWFHYCNLASEV--PPDGHRKS   67 (73)
Q Consensus         3 r~~Y~~fL~~fPl~--~~YWkkya----------~~~~~~a~~V~erav~~~p~-SvdLW~~Yl~f~~~~--~~~~~~~l   67 (73)
                      +...++-++-=|-.  ..-|.-+.          -|+.++|++.|+||++=-|. ++|....|..|....  +.+..++.
T Consensus       183 ~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~  262 (301)
T 3u64_A          183 VMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEA  262 (301)
T ss_dssp             HHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHH
Confidence            44556666666662  22444444          28999999999999998897 499999999999874  67776666


Q ss_pred             hhh
Q 041861           68 EYQ   70 (73)
Q Consensus        68 f~~   70 (73)
                      +++
T Consensus       263 L~k  265 (301)
T 3u64_A          263 LDR  265 (301)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>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=90.27  E-value=0.57  Score=33.07  Aligned_cols=57  Identities=4%  Similarity=-0.130  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.|...|-....|...+     +++.++|++.|++|++--|...+++..........
T Consensus       293 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~  354 (370)
T 1ihg_A          293 VDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKI  354 (370)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            3568888999999998998888     89999999999999999999999888766655543

>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=90.25  E-value=0.75  Score=30.07  Aligned_cols=55  Identities=11%  Similarity=0.032  Sum_probs=45.7

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH-----hcc----------hHHHHHHHHHHHhhccCcHHHHHHHHHHH
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC-----CAL----------LTRVVEVFEQSMQSATYSSDVWFHYCNLA   56 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya-----~~~----------~~~a~~V~erav~~~p~SvdLW~~Yl~f~   56 (73)
                      ++..|++.+...|-...-|..+.     ++.          +++|+..|++|++--|...+.|.+--+..
T Consensus        21 A~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           21 IRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            46789999999999999999998     333          56999999999999999999887644433

>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=90.20  E-value=0.89  Score=32.70  Aligned_cols=57  Identities=5%  Similarity=-0.104  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.|...|-....|...+     +++.++|++.|+++++--|.+.+.|..........
T Consensus       337 ~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~  398 (457)
T 1kt0_A          337 VECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKA  398 (457)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999998888     89999999999999999999888887766554433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=89.29  E-value=1.5  Score=27.77  Aligned_cols=45  Identities=4%  Similarity=-0.075  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHccch---HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH
Q 041861            3 RLVYNSFLADFHLC---YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD   47 (73)
Q Consensus         3 r~~Y~~fL~~fPl~---~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd   47 (73)
                      ...|++++..+|-.   ..-|...+     .|+.++|++.|++++...|.+..
T Consensus        24 ~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~   76 (225)
T 2yhc_A           24 ITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN   76 (225)
T ss_dssp             HHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTT
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc
Confidence            46799999998864   24455444     89999999999999999998765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.76  E-value=2.4  Score=27.96  Aligned_cols=67  Identities=4%  Similarity=-0.064  Sum_probs=43.7

Q ss_pred             HHHHHHHHHccch------HHHHHHHH-----h-cchHHHHHHHHHHHhhccCc------HHHHHHHHHHHhhc-Ccchh
Q 041861            4 LVYNSFLADFHLC------YGYWRKAC-----C-ALLTRVVEVFEQSMQSATYS------SDVWFHYCNLASEV-PPDGH   64 (73)
Q Consensus         4 ~~Y~~fL~~fPl~------~~YWkkya-----~-~~~~~a~~V~erav~~~p~S------vdLW~~Yl~f~~~~-~~~~~   64 (73)
                      ..|++-+..+|-.      ...+...+     . |+.++|++.|++|+.-.|..      .+.+.+........ +.++.
T Consensus        98 ~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A  177 (292)
T 1qqe_A           98 DSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEA  177 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHH
Confidence            4566667666654      34566655     4 88889999999998876642      45666666655555 66666


Q ss_pred             hhhhhh
Q 041861           65 RKSEYQ   70 (73)
Q Consensus        65 ~~lf~~   70 (73)
                      ...+++
T Consensus       178 ~~~~~~  183 (292)
T 1qqe_A          178 SDIYSK  183 (292)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=87.29  E-value=3.9  Score=26.92  Aligned_cols=44  Identities=7%  Similarity=-0.019  Sum_probs=34.7

Q ss_pred             HHHHHHHHHccch------HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHH
Q 041861            4 LVYNSFLADFHLC------YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSD   47 (73)
Q Consensus         4 ~~Y~~fL~~fPl~------~~YWkkya-----~~~~~~a~~V~erav~~~p~Svd   47 (73)
                      ..|++-|..+|-.      ...+.+.+     +|+.++|++.|++++...|.+.+
T Consensus       139 ~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~  193 (292)
T 1qqe_A          139 DCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRL  193 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTT
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCc
Confidence            5688888888843      45677776     89999999999999997776544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=86.88  E-value=3.5  Score=28.17  Aligned_cols=26  Identities=15%  Similarity=0.046  Sum_probs=11.8

Q ss_pred             chHHHHHHHHHHHhhccCcHHHHHHH
Q 041861           27 LLTRVVEVFEQSMQSATYSSDVWFHY   52 (73)
Q Consensus        27 ~~~~a~~V~erav~~~p~SvdLW~~Y   52 (73)
                      ..++|++.|++++..-|...+.|.+-
T Consensus       228 ~~~~a~~~~~~al~~~~~~~~~~~~l  253 (472)
T 4g1t_A          228 EEGEGEKLVEEALEKAPGVTDVLRSA  253 (472)
T ss_dssp             --CHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCccHHHHHHHH
Confidence            34445555555555445444444443

>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=86.66  E-value=4.8  Score=26.11  Aligned_cols=66  Identities=3%  Similarity=-0.066  Sum_probs=46.3

Q ss_pred             HHHHHHHHHccc-------hH-----HHHHHHH-----hcchHHHHHHHHHHHhh-------ccCcHHHH----HHHHHH
Q 041861            4 LVYNSFLADFHL-------CY-----GYWRKAC-----CALLTRVVEVFEQSMQS-------ATYSSDVW----FHYCNL   55 (73)
Q Consensus         4 ~~Y~~fL~~fPl-------~~-----~YWkkya-----~~~~~~a~~V~erav~~-------~p~SvdLW----~~Yl~f   55 (73)
                      ..|++-|.--|-       ..     ..|-.-+     +|..++|++.|++||.-       -|...+.|    .+=-..
T Consensus        32 ~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~a  111 (159)
T 2hr2_A           32 ANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALA  111 (159)
T ss_dssp             HHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHH
Confidence            467888887777       22     2777777     89999999999999998       89888899    543333


Q ss_pred             Hhhc-Ccchhhhhhh
Q 041861           56 ASEV-PPDGHRKSEY   69 (73)
Q Consensus        56 ~~~~-~~~~~~~lf~   69 (73)
                      +... +.++...-|.
T Consensus       112 L~~lgr~eEAl~~y~  126 (159)
T 2hr2_A          112 LDGLGRGAEAMPEFK  126 (159)
T ss_dssp             HHHTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHH
Confidence            3333 5555444443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=86.51  E-value=4.1  Score=27.15  Aligned_cols=68  Identities=3%  Similarity=-0.112  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHccchH----HHHHHHH-----hcchHHHHHHHHHHHhh------ccCcHHHHHHHHHHHhhc-Ccchhhh
Q 041861            3 RLVYNSFLADFHLCY----GYWRKAC-----CALLTRVVEVFEQSMQS------ATYSSDVWFHYCNLASEV-PPDGHRK   66 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~----~YWkkya-----~~~~~~a~~V~erav~~------~p~SvdLW~~Yl~f~~~~-~~~~~~~   66 (73)
                      ...|++.+...|-..    ..|...+     .|+.++|++.|++++..      -|...+.|.......... +.++...
T Consensus        68 ~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  147 (411)
T 4a1s_A           68 VAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAI  147 (411)
T ss_dssp             HHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            356777777777643    3455555     78888888888888875      355556666655555444 6666555


Q ss_pred             hhhh
Q 041861           67 SEYQ   70 (73)
Q Consensus        67 lf~~   70 (73)
                      .+++
T Consensus       148 ~~~~  151 (411)
T 4a1s_A          148 CCER  151 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=86.39  E-value=4.4  Score=25.39  Aligned_cols=67  Identities=4%  Similarity=-0.145  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHccch----HHHHHHHH-----hcchHHHHHHHHHHHhh------ccCcHHHHHHHHHHHhhc-Ccchhhh
Q 041861            3 RLVYNSFLADFHLC----YGYWRKAC-----CALLTRVVEVFEQSMQS------ATYSSDVWFHYCNLASEV-PPDGHRK   66 (73)
Q Consensus         3 r~~Y~~fL~~fPl~----~~YWkkya-----~~~~~~a~~V~erav~~------~p~SvdLW~~Yl~f~~~~-~~~~~~~   66 (73)
                      ...|++.+...|-.    ...+...+     .|+.++|++.+++++..      -|.....|..-....... +.++...
T Consensus        25 ~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  104 (338)
T 3ro2_A           25 VSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIV  104 (338)
T ss_dssp             HHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            34566777766654    23444444     67788888888887764      223344444444333333 5555555


Q ss_pred             hhh
Q 041861           67 SEY   69 (73)
Q Consensus        67 lf~   69 (73)
                      .++
T Consensus       105 ~~~  107 (338)
T 3ro2_A          105 CCQ  107 (338)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=86.38  E-value=2.2  Score=27.90  Aligned_cols=33  Identities=12%  Similarity=0.124  Sum_probs=24.3

Q ss_pred             hcchHHHHHHHHHHHhh--ccCcHHHHHHHHHHHhh
Q 041861           25 CALLTRVVEVFEQSMQS--ATYSSDVWFHYCNLASE   58 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~--~p~SvdLW~~Yl~f~~~   58 (73)
                      .|+..+|.+||++|+++  -|. -.|-..|-.|..+
T Consensus       114 ~g~~~~A~~Vy~~Gi~~~A~P~-~rL~~~~~~F~~R  148 (152)
T 4a1g_A          114 QGELQHASAVLQRGIQNQAEPR-EFLQQQYRLFQTR  148 (152)
T ss_dssp             TTCHHHHHHHHHHHHHTTCBSH-HHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHHcCCccH-HHHHHHHHHHHHH
Confidence            58889999999999984  442 4477777777654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=86.31  E-value=3.4  Score=25.92  Aligned_cols=19  Identities=11%  Similarity=0.179  Sum_probs=10.5

Q ss_pred             hcchHHHHHHHHHHHhhcc
Q 041861           25 CALLTRVVEVFEQSMQSAT   43 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p   43 (73)
                      .|+.++|++.+++++...|
T Consensus       236 ~g~~~~A~~~~~~al~~~~  254 (338)
T 3ro2_A          236 LGEFETASEYYKKTLLLAR  254 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHH
Confidence            4555666666665555433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=84.69  E-value=4  Score=26.74  Aligned_cols=19  Identities=11%  Similarity=0.179  Sum_probs=10.1

Q ss_pred             hcchHHHHHHHHHHHhhcc
Q 041861           25 CALLTRVVEVFEQSMQSAT   43 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p   43 (73)
                      .|+.++|++.|++++.-.|
T Consensus       240 ~g~~~~A~~~~~~al~~~~  258 (406)
T 3sf4_A          240 LGEFETASEYYKKTLLLAR  258 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHH
Confidence            4555555555555555433

>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=84.64  E-value=2.9  Score=27.65  Aligned_cols=34  Identities=9%  Similarity=0.141  Sum_probs=27.6

Q ss_pred             hcchHHHHHHHHHHHhh--ccCcHHHHHHHHHHHhhc
Q 041861           25 CALLTRVVEVFEQSMQS--ATYSSDVWFHYCNLASEV   59 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~--~p~SvdLW~~Yl~f~~~~   59 (73)
                      .|+..+|.+||++|+++  -| .-.|-..|-.|..+.
T Consensus       109 ~~~~~~A~~Iy~~Gi~~~A~P-~~~L~~~~~~F~~R~  144 (164)
T 2wvi_A          109 RENFRKADAIFQEGIQQKAEP-LERLQSQHRQFQARV  144 (164)
T ss_dssp             TTCHHHHHHHHHHHHHTTCBS-HHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCc-HHHHHHHHHHHHHHH
Confidence            68999999999999995  34 356888888888765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=83.87  E-value=3.9  Score=22.70  Aligned_cols=45  Identities=7%  Similarity=0.029  Sum_probs=25.3

Q ss_pred             hcchHHHHHHHHHHHhhccCc------HHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYS------SDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~S------vdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      .|+.++|.+.+++++.-.+..      ...+.+........ +.++....++
T Consensus        62 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  113 (164)
T 3ro3_A           62 LGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHL  113 (164)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            678888888888888755432      22333333333222 5555555444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=82.94  E-value=5  Score=26.72  Aligned_cols=19  Identities=11%  Similarity=0.230  Sum_probs=11.2

Q ss_pred             hcchHHHHHHHHHHHhhcc
Q 041861           25 CALLTRVVEVFEQSMQSAT   43 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p   43 (73)
                      .|+.++|++.|++++...|
T Consensus       276 ~g~~~~A~~~~~~al~~~~  294 (411)
T 4a1s_A          276 LGQFEDAAEHYKRTLALAV  294 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHH
Confidence            4566666666666665444

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=82.92  E-value=6.4  Score=25.73  Aligned_cols=67  Identities=7%  Similarity=-0.076  Sum_probs=43.0

Q ss_pred             HHHHHHHHHccch------HHHHHHHH-----hcchHHHHHHHHHHHhhccCc------HHHHHHHHHHHhhc-Ccchhh
Q 041861            4 LVYNSFLADFHLC------YGYWRKAC-----CALLTRVVEVFEQSMQSATYS------SDVWFHYCNLASEV-PPDGHR   65 (73)
Q Consensus         4 ~~Y~~fL~~fPl~------~~YWkkya-----~~~~~~a~~V~erav~~~p~S------vdLW~~Yl~f~~~~-~~~~~~   65 (73)
                      ..|++.+..+|-.      ...+...+     .|+.++|++.|++++...+..      ...+.......... +.++..
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            4566667666655      44455555     799999999999999865433      33555544444433 777776


Q ss_pred             hhhhh
Q 041861           66 KSEYQ   70 (73)
Q Consensus        66 ~lf~~   70 (73)
                      ..+++
T Consensus       328 ~~~~~  332 (406)
T 3sf4_A          328 HFAEK  332 (406)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66554

>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=81.27  E-value=9.5  Score=28.60  Aligned_cols=55  Identities=18%  Similarity=0.300  Sum_probs=37.7

Q ss_pred             HHHHHHHHHccchHHHH--HHHH---hcc----------hHHHHHHHHHHHhhccCcHHHHHHHHHHHhh
Q 041861            4 LVYNSFLADFHLCYGYW--RKAC---CAL----------LTRVVEVFEQSMQSATYSSDVWFHYCNLASE   58 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YW--kkya---~~~----------~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~   58 (73)
                      ..|++.|...|=.+..|  ++.+   ++.          .+++.+.+++++..-|-+-..|.+=.-.+..
T Consensus        50 ~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           50 ELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            45777777788777777  3344   444          6777778888888777788888765544443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=81.27  E-value=4.9  Score=23.05  Aligned_cols=42  Identities=7%  Similarity=-0.044  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccC
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATY   44 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~   44 (73)
                      +..+++-|..-|-|-.-+.-.+     .|+.++|++.|++.+..-|.
T Consensus        29 ~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A           29 SLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             HHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3455566666666666655555     56666666666666665554

---

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	73
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.97
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.89
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.5
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.41
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.36
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.34
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.07
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.01
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.95
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	96.85
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	96.68
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.2
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	95.77
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	95.44
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	95.34
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	94.79
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	94.69
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	94.62
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	93.96
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	93.93
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	93.78
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	93.78
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	93.18
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	93.13
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	92.98
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	92.57
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	92.46
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	92.41
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	91.92
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	91.57
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	91.51
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	91.01
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	89.68
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	88.27
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	88.08
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	87.62
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	85.64
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	84.75
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	84.27
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	81.35
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	80.41

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.97  E-value=6.5e-10  Score=74.67  Aligned_cols=68  Identities=13%  Similarity=0.155  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCc----HHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYS----SDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~S----vdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      +.+|++.|..+|...+.|..|+     .|+.++|+.+|+||+...|.+    ..+|..|+.|.... +.+.++++.+|
T Consensus       189 ~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r  266 (308)
T d2onda1         189 FKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445555555555555555555     444555555555555544432    22555555554444 45555554444

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.89  E-value=2.8e-09  Score=71.53  Aligned_cols=70  Identities=11%  Similarity=0.091  Sum_probs=65.7

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      .|.+|++.+...|.....|..+|      .++.+.|..+|++|+...|.+.++|..|++|.... +.+++|.+|+|.
T Consensus       153 ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~a  229 (308)
T d2onda1         153 GRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERV  229 (308)
T ss_dssp             HHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            57899999999999999999999      47899999999999999999999999999999988 999999999984

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.50  E-value=0.00031  Score=40.66  Aligned_cols=69  Identities=7%  Similarity=-0.081  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      ...|++.+...|-....|...+     .++.++|+..|++|++--|...+.|..-....... +.++..+.++|+
T Consensus        36 ~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          36 ALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4578999999999999999998     89999999999999999999999999866666555 777777766664

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=0.00068  Score=40.71  Aligned_cols=68  Identities=3%  Similarity=-0.090  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.|...|-...+|...+     +|+.++|++.|+++++--|.+++.|.......... +.++....+++
T Consensus        30 ~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA~~~~~~  103 (159)
T d1a17a_          30 IKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYET  103 (159)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678899999999999999999     89999999999999998899999998876665555 55555544443

>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=97.36  E-value=0.00062  Score=42.95  Aligned_cols=68  Identities=9%  Similarity=-0.002  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.|...|-....|...+     .|+.++|++.|+++++.-|.+.+.|.......... +.++....+.+
T Consensus        19 ~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~   92 (388)
T d1w3ba_          19 ERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRH   92 (388)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccccccccccc
Confidence            4689999999999999999988     89999999999999999999999998876665555 66666655543

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.34  E-value=0.00091  Score=38.76  Aligned_cols=67  Identities=3%  Similarity=-0.143  Sum_probs=55.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.|...|.....|...+     +|+.++|++.|++++.--|...+.|.+...-.... +.++....+++
T Consensus        24 ~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~   96 (117)
T d1elwa_          24 QCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEE   96 (117)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHHHHHHHHH
Confidence            578999999999999999999     89999999999999999999999988777665555 66666655544

>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=97.07  E-value=0.0017  Score=41.45  Aligned_cols=67  Identities=3%  Similarity=-0.047  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.|...|-....|...+     .|+.++|++.|++++.--|.+.+.|.......... +.++..+.++
T Consensus        39 ~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~  111 (323)
T d1fcha_          39 VLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILR  111 (323)
T ss_dssp             HHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccccccccchh
Confidence            4679999999999999999998     79999999999999999999999999877665554 5555555444

>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=97.01  E-value=0.0023  Score=38.28  Aligned_cols=68  Identities=10%  Similarity=0.071  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      -..|++.|...|-....|-..+     +|+.++|++.|++|+.--|..++-|.+........ +.++....+++
T Consensus        24 i~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~~~A~~~~~~   97 (201)
T d2c2la1          24 AACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQR   97 (201)
T ss_dssp             HHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3578999999999999999999     89999999999999998899999998877766666 66666665553

>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=96.95  E-value=0.0027  Score=40.42  Aligned_cols=68  Identities=7%  Similarity=0.006  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ...|++.+...|-....|...+     .|+.++|++.|+++++.-|...+.|.+........ +.++....|++
T Consensus       192 ~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  265 (323)
T d1fcha_         192 VDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLE  265 (323)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3567777888888888887777     77888888888888887787788777665554444 66666655543

>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=96.85  E-value=0.0045  Score=38.80  Aligned_cols=67  Identities=6%  Similarity=-0.019  Sum_probs=46.5

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|+..+...|-....|...+     .|+.++|++.|+++++.-|.+.+.|.+........ +.++....+++
T Consensus       292 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~  364 (388)
T d1w3ba_         292 DCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            456666777777777776666     67778888888888887777777777766555554 66666665554

>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=96.68  E-value=0.0065  Score=37.36  Aligned_cols=67  Identities=7%  Similarity=-0.116  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|++.|...|-....|...+     +|+.++|++.|++++.--|...+.|.+-....... +.+.....++
T Consensus        57 ~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  129 (259)
T d1xnfa_          57 RNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLL  129 (259)
T ss_dssp             HHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHH
Confidence            4678888888898888888888     78899999999999988888888887766554444 5555555444

>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=96.20  E-value=0.012  Score=33.71  Aligned_cols=52  Identities=4%  Similarity=-0.137  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCN   54 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~   54 (73)
                      -..|++.+...|-...-|...+     +|+.++|+..|++|+..-|.+.+++..+-+
T Consensus        57 ~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~  113 (117)
T d1elwa_          57 YEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQN  113 (117)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHH
T ss_pred             chhhhhHHHhccchhhHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3578999999999999999998     899999999999999999999999987654

>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=95.77  E-value=0.019  Score=37.88  Aligned_cols=49  Identities=12%  Similarity=0.158  Sum_probs=24.8

Q ss_pred             HHHHHHHHccchHHHHHHHH-----hc-chHHHHHHHHHHHhhccCcHHHHHHHH
Q 041861            5 VYNSFLADFHLCYGYWRKAC-----CA-LLTRVVEVFEQSMQSATYSSDVWFHYC   53 (73)
Q Consensus         5 ~Y~~fL~~fPl~~~YWkkya-----~~-~~~~a~~V~erav~~~p~SvdLW~~Yl   53 (73)
                      .|++.+...|-.+..|..-+     ++ +.++|++.+++++..-|.+.+.|.+-.
T Consensus        65 ~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~  119 (315)
T d2h6fa1          65 LTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHh
Confidence            45555555555555554443     22 345555555555555555555555443

>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=95.44  E-value=0.034  Score=32.75  Aligned_cols=52  Identities=6%  Similarity=-0.043  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCN   54 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~   54 (73)
                      ...|++.|...|-....|...+     +|+.++|++.|++++..-|...+.+..+-.
T Consensus        64 ~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~  120 (159)
T d1a17a_          64 LGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQE  120 (159)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4679999999999999999998     899999999999999999999998877643

>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=95.34  E-value=0.041  Score=32.23  Aligned_cols=47  Identities=9%  Similarity=-0.033  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH--------hcchHHHHHHHHHHHhhccCc--HHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC--------CALLTRVVEVFEQSMQSATYS--SDVW   49 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya--------~~~~~~a~~V~erav~~~p~S--vdLW   49 (73)
                      ...|++.|..-|-..+....||        .++.++|+++|++++..-|..  ++.|
T Consensus        19 e~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~   75 (122)
T d1nzna_          19 EKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYV   75 (122)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHH
Confidence            4678888888888888888888        245567888888888754432  4455

>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=94.79  E-value=0.016  Score=34.17  Aligned_cols=46  Identities=13%  Similarity=0.044  Sum_probs=37.7

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccc---hhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPD---GHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~---~~~~lf~~   70 (73)
                      .+++++|++.|++++..-|.+.+...+|...++.. +++   +...++++
T Consensus        12 ~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~   61 (122)
T d1nzna_          12 VEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEE   61 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            67899999999999999999999999999998764 343   35555554

>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=94.69  E-value=0.11  Score=34.00  Aligned_cols=67  Identities=12%  Similarity=0.112  Sum_probs=56.8

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      ..|++.|...|-++..|...+     +|+.++|++.|++++.--|.+.+.|.+-....... +.+.....+.+
T Consensus        99 ~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~  171 (315)
T d2h6fa1          99 NYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQ  171 (315)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            568899999999999999988     89999999999999999999999999876665555 66666665544

>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=94.62  E-value=0.07  Score=31.59  Aligned_cols=51  Identities=12%  Similarity=-0.101  Sum_probs=44.1

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCN   54 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~   54 (73)
                      ..|++.|..-|-...-|..-+     +|+.+.|+..|++|+.--|.+.+.+..+-.
T Consensus        88 ~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~  143 (153)
T d2fbna1          88 DHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYEL  143 (153)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             hhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            467888999999988888888     899999999999999988999998877544

>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=93.96  E-value=0.063  Score=31.56  Aligned_cols=46  Identities=2%  Similarity=0.001  Sum_probs=38.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|++.|++||..-|.+..+|.+-....... +.+.+..-|++
T Consensus        17 ~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~   63 (201)
T d2c2la1          17 GRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRR   63 (201)
T ss_dssp             TTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHH
Confidence            78999999999999999999999999877766655 66666665544

>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=93.93  E-value=0.093  Score=30.13  Aligned_cols=50  Identities=8%  Similarity=0.025  Sum_probs=43.7

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYC   53 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl   53 (73)
                      ..|++.|...|-....|...+     +|+.++|++.|++||.--|.+.+.|....
T Consensus        25 ~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a   79 (128)
T d1elra_          25 KHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIA   79 (128)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHH
Confidence            578999999999999999888     89999999999999998787777777654

>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=93.78  E-value=0.19  Score=32.12  Aligned_cols=57  Identities=19%  Similarity=0.270  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHccchHHHHHHHH---------------hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC---------------CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya---------------~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.|...|-.+..|..-.               .+..++|...+++++..-|-+.+.|.+........
T Consensus        49 l~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          49 LELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHh
Confidence            4567888888888888883211               23467788888888888888888887765554443

>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=93.78  E-value=0.19  Score=29.85  Aligned_cols=53  Identities=6%  Similarity=-0.114  Sum_probs=44.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLA   56 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~   56 (73)
                      ..+++.|..-|-...-|...+     +|+.++|++-|++++.--|.+.+.+...-.-.
T Consensus        85 ~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          85 ECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            357788899999999888888     89999999999999998899888877765544

>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=93.18  E-value=0.11  Score=29.17  Aligned_cols=46  Identities=15%  Similarity=0.045  Sum_probs=37.5

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .|+.++|+..|++++..-|.+.+.|..-....... +.++....+++
T Consensus        29 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~   75 (112)
T d1hxia_          29 LANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNH   75 (112)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhccccc
Confidence            79999999999999999999999998866655555 66666665554

>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=93.13  E-value=0.15  Score=30.05  Aligned_cols=51  Identities=10%  Similarity=0.057  Sum_probs=43.7

Q ss_pred             hHHHHHHHHHHccchHHHHHHHH---------------hcchHHHHHHHHHHHhhccCcHHHHHHH
Q 041861            2 IRLVYNSFLADFHLCYGYWRKAC---------------CALLTRVVEVFEQSMQSATYSSDVWFHY   52 (73)
Q Consensus         2 ~r~~Y~~fL~~fPl~~~YWkkya---------------~~~~~~a~~V~erav~~~p~SvdLW~~Y   52 (73)
                      .+..|++.+..-|-....|..++               .+..++|++.|++|++-=|.+.+.|.+-
T Consensus        16 A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~l   81 (145)
T d1zu2a1          16 IRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCI   81 (145)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhH
Confidence            35789999999999999999998               1346889999999999889999988653

>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=92.98  E-value=0.1  Score=34.32  Aligned_cols=57  Identities=9%  Similarity=-0.178  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV   59 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~   59 (73)
                      ...|++.+...|-....+..++     .|+.++|++.|+++++--|.+...|..|...+...
T Consensus        16 l~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~   77 (264)
T d1zbpa1          16 LELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAA   77 (264)
T ss_dssp             HHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhc
Confidence            3578888999999999999988     78999999999999998899999998887776543

>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=92.57  E-value=0.22  Score=30.59  Aligned_cols=47  Identities=11%  Similarity=0.128  Sum_probs=36.1

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQE   71 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~~   71 (73)
                      +|+.++|+..+++++..-|.+-++|...+.-.... +.++..+.|.+.
T Consensus        80 ~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          80 CGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            67888888888888888888888888877777766 777777666654

>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=92.46  E-value=0.29  Score=32.04  Aligned_cols=51  Identities=12%  Similarity=0.213  Sum_probs=43.7

Q ss_pred             HHHHH-hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           20 WRKAC-CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        20 Wkkya-~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      |++.. .|++++|++.|+++|+.-|.+.+++..+....+.. +.++....+++
T Consensus         3 ~~~aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~   55 (264)
T d1zbpa1           3 WKNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQ   55 (264)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555 78999999999999999999999999999999887 77777766654

>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=92.41  E-value=0.45  Score=30.27  Aligned_cols=50  Identities=18%  Similarity=0.259  Sum_probs=41.1

Q ss_pred             HHHHHHHHHccchHHHHHHHH-------hcchHHHHHHHHHHHhhccCcHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-------CALLTRVVEVFEQSMQSATYSSDVWFHYC   53 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-------~~~~~~a~~V~erav~~~p~SvdLW~~Yl   53 (73)
                      ..|++.|...|-.+..|-..+       .++.++++..+++++..-|...+.|..-+
T Consensus        94 ~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~  150 (334)
T d1dcea1          94 GFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRR  150 (334)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHH
Confidence            358888999999999998876       34688999999999998888888876554

>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=91.92  E-value=0.17  Score=29.92  Aligned_cols=50  Identities=4%  Similarity=-0.180  Sum_probs=35.3

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYC   53 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl   53 (73)
                      ..|++.|+.-|-....|...+     +|+.+.|++.|++|++--|...+......
T Consensus        98 ~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~  152 (169)
T d1ihga1          98 DSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELL  152 (169)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            346667777777777777766     67777777778777777777666655543

>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=91.57  E-value=0.55  Score=28.12  Aligned_cols=46  Identities=7%  Similarity=-0.244  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHH
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDV   48 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdL   48 (73)
                      ...|++.|...|-....|...+     +|..++|++.|+++++.-|.....
T Consensus        91 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~  141 (259)
T d1xnfa_          91 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFR  141 (259)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHH
Confidence            4679999999999999999888     799999999999999988876663

>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=91.51  E-value=0.53  Score=27.96  Aligned_cols=52  Identities=8%  Similarity=-0.176  Sum_probs=42.9

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHH
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNL   55 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f   55 (73)
                      ..+++.|..-|-..+.|...+     +|+.++|++.|++|+.-=|...++-..+-..
T Consensus        83 ~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~  139 (170)
T d1p5qa1          83 ESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             chhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            457788889999989888888     8999999999999999888888876665443

>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=91.01  E-value=0.26  Score=29.45  Aligned_cols=68  Identities=7%  Similarity=0.010  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHccchHHHH---------------HHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Cc
Q 041861            3 RLVYNSFLADFHLCYGYW---------------RKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PP   61 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YW---------------kkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~   61 (73)
                      ...|++.|..+|...+.+               -..|     +|+.++|++.+++++.--|.+++.|..-....... +.
T Consensus        33 i~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~  112 (170)
T d1p5qa1          33 LLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDF  112 (170)
T ss_dssp             HHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhH
Confidence            356777787777654433               2333     79999999999999999999999887644433333 55


Q ss_pred             chhhhhhhh
Q 041861           62 DGHRKSEYQ   70 (73)
Q Consensus        62 ~~~~~lf~~   70 (73)
                      ++....|++
T Consensus       113 ~~A~~~~~~  121 (170)
T d1p5qa1         113 ELARADFQK  121 (170)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554443

>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=89.68  E-value=0.36  Score=27.45  Aligned_cols=46  Identities=4%  Similarity=-0.065  Sum_probs=37.9

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      .++.++|++.|++++.--|...++|.+........ +.+.....+++
T Consensus        17 ~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~   63 (128)
T d1elra_          17 KKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEK   63 (128)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHH
Confidence            68999999999999999999999999887777666 66666655543

>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=88.27  E-value=1  Score=27.21  Aligned_cols=53  Identities=13%  Similarity=-0.010  Sum_probs=39.0

Q ss_pred             HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861           17 YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus        17 ~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      ...|...+     +|+.++|++.|++||+-=|...+.|.+-....... +-++...-|+
T Consensus        36 ~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~   94 (192)
T d1hh8a_          36 SRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLK   94 (192)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            34566666     89999999999999998899999998866655444 5555554444

>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=88.08  E-value=1.1  Score=24.10  Aligned_cols=51  Identities=6%  Similarity=-0.105  Sum_probs=38.2

Q ss_pred             HHHHHHHHHccch-------HHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHH
Q 041861            4 LVYNSFLADFHLC-------YGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCN   54 (73)
Q Consensus         4 ~~Y~~fL~~fPl~-------~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~   54 (73)
                      .-|++-|...|-.       .......+     +|+.++|++.|+++++--|...+.+.+..-
T Consensus        26 ~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~~   88 (95)
T d1tjca_          26 LWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLKY   88 (95)
T ss_dssp             HHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            4567777776643       23333444     899999999999999999999998887543

>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=87.62  E-value=0.57  Score=28.61  Aligned_cols=54  Identities=2%  Similarity=0.004  Sum_probs=43.1

Q ss_pred             HHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhh------ccCcHHHHHHHHHHHh
Q 041861            4 LVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQS------ATYSSDVWFHYCNLAS   57 (73)
Q Consensus         4 ~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~------~p~SvdLW~~Yl~f~~   57 (73)
                      ..+++.|...|+....|....     .|..++|.++|+++...      +-.|-++-.-|-.-+.
T Consensus        88 ~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l~~~il~  152 (179)
T d2ff4a2          88 AELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERILR  152 (179)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            468899999999999999998     89999999999999664      3336666665555443

>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=85.64  E-value=1.6  Score=25.27  Aligned_cols=56  Identities=4%  Similarity=-0.079  Sum_probs=40.2

Q ss_pred             ccchHHHHHHHH-----hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhh
Q 041861           13 FHLCYGYWRKAC-----CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSE   68 (73)
Q Consensus        13 fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf   68 (73)
                      -|+....|...+     +|+.++|+..|.++++--|.+.+.|..-..-.... +.+....-|
T Consensus        73 ~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~  134 (169)
T d1ihga1          73 QPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADL  134 (169)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHH
Confidence            356666777776     79999999999999998899999887654433333 444444433

>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=84.75  E-value=1.3  Score=26.65  Aligned_cols=41  Identities=0%  Similarity=-0.075  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHccchHHHHHHHH-----hcchHHHHHHHHHHHhhcc
Q 041861            3 RLVYNSFLADFHLCYGYWRKAC-----CALLTRVVEVFEQSMQSAT   43 (73)
Q Consensus         3 r~~Y~~fL~~fPl~~~YWkkya-----~~~~~~a~~V~erav~~~p   43 (73)
                      -..|++-++..|-...-|...+     +|+.+.|++-|++|+...|
T Consensus        56 ~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~  101 (192)
T d1hh8a_          56 EKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLR  101 (192)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCc
Confidence            3578999999999999999988     8999999999999997544

>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=84.27  E-value=0.43  Score=27.93  Aligned_cols=33  Identities=12%  Similarity=0.150  Sum_probs=28.6

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLAS   57 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~   57 (73)
                      ++..++|++.|++++..-|.+.+.+.++-....
T Consensus        10 ~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~   42 (145)
T d1zu2a1          10 ILLFEQIRQDAENTYKSNPLDADNLTRWGGVLL   42 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHhhCCcchHHHHHHHHHHH
Confidence            456899999999999999999999998876654

>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=81.35  E-value=2.6  Score=24.52  Aligned_cols=45  Identities=7%  Similarity=0.001  Sum_probs=33.8

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEY   69 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~   69 (73)
                      +++.++|++-+++++.--|.++..|..-....... +-+....-|+
T Consensus        77 l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~  122 (168)
T d1kt1a1          77 LREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFE  122 (168)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            89999999999999998899999887766554444 4444444433

>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=80.41  E-value=3.1  Score=23.85  Aligned_cols=46  Identities=2%  Similarity=0.016  Sum_probs=34.9

Q ss_pred             hcchHHHHHHHHHHHhhccCcHHHHHHHHHHHhhc-Ccchhhhhhhh
Q 041861           25 CALLTRVVEVFEQSMQSATYSSDVWFHYCNLASEV-PPDGHRKSEYQ   70 (73)
Q Consensus        25 ~~~~~~a~~V~erav~~~p~SvdLW~~Yl~f~~~~-~~~~~~~lf~~   70 (73)
                      +|..++|++.+++++.--|.++..|..-....... +.+....-|++
T Consensus        80 l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~  126 (153)
T d2fbna1          80 NKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYK  126 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHH
Confidence            79999999999999999999999887655544443 55555554443