Query psy12163
Match_columns 88
No_of_seqs 102 out of 396
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 20:19:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12163.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12163hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03124 EXS: EXS family; Int 99.9 4.7E-27 1E-31 177.8 3.1 83 5-88 237-334 (345)
2 KOG1162|consensus 99.9 1.7E-23 3.7E-28 169.7 1.2 83 3-88 486-581 (617)
3 COG5409 EXS domain-containing 99.6 1.1E-16 2.4E-21 123.4 -0.4 78 5-88 265-356 (384)
4 PF12980 DUF3864: Domain of Un 19.6 53 0.0012 20.6 0.8 11 26-36 39-49 (82)
5 PF08412 Ion_trans_N: Ion tran 18.3 43 0.00093 20.8 0.1 12 16-27 42-53 (77)
6 PRK00104 scpA segregation and 12.8 1.5E+02 0.0033 21.6 1.8 17 70-86 204-220 (242)
7 COG0525 ValS Valyl-tRNA synthe 11.7 1.1E+02 0.0024 27.1 1.0 21 11-31 630-650 (877)
8 PF02616 ScpA_ScpB: ScpA/B pro 10.1 1.7E+02 0.0036 20.9 1.3 17 70-86 208-224 (242)
9 PF12534 DUF3733: Leucine-rich 9.8 91 0.002 18.8 -0.1 10 21-30 22-31 (65)
10 PF15018 InaF-motif: TRP-inter 9.6 2E+02 0.0042 15.6 1.1 15 13-27 22-36 (38)
No 1
>PF03124 EXS: EXS family; InterPro: IPR004342 The EXS domain is named after ERD1/XPR1/SYG1 and proteins containing this motif include the C-terminal of the SYG1 G-protein associated signal transduction protein from Saccharomyces cerevisiae, and sequences that are thought to be Murine leukemia virus (MLV) receptors (XPR1. The N-terminal of these proteins often have an SPX domain (IPR004331 from INTERPRO) []. While the N-terminal is thought to be involved in signal transduction, the role of the C-terminal is not known. This region of similarity contains several predicted transmembrane helices. This family also includes the ERD1 (ERD: ER retention defective) S. cerevisiae proteins. ERD1 proteins are involved in the localization of endogenous endoplasmic reticulum (ER) proteins. Erd1 null mutants secrete such proteins even though they possess the C-terminal HDEL ER lumen localization label sequence. In addition, null mutants also exhibit defects in the Golgi-dependent processing of several glycoproteins, which led to the suggestion that the sorting of luminal ER proteins actually occurs in the Golgi, with subsequent return of these proteins to the ER via `salvage' vesicles [].; GO: 0016021 integral to membrane
Probab=99.93 E-value=4.7e-27 Score=177.85 Aligned_cols=83 Identities=29% Similarity=0.616 Sum_probs=72.7
Q ss_pred chhHhHHHHHHhhhhhhhhhhcccccCcCCCCCCCCCCCCcccccCCCceEEEEEEEEcC----cchh-----------h
Q psy12163 5 FFYPWLAASVISSIYSYIWDIKMDWGLFDKNAPPDNPFLREETVYSSTTSTLIGYVLFNP----TGIL-----------M 69 (88)
Q Consensus 5 ~~~~wi~~~~inS~Ys~~WDv~mDWgL~~~~~~~~~~~LR~~l~y~~~~~Yy~Aiv~~n~----~~~~-----------~ 69 (88)
.+.+|++++++||+||++|||+|||||+++++++++++||++++||+|++||+||+ .|. .|+. +
T Consensus 237 ~~~~w~~~~~i~s~Ys~~WDv~~DWgL~~~~~~~~~~~LR~~l~~~~~~~Yy~ai~-~n~ilRf~W~~~~~~~~~~~~~~ 315 (345)
T PF03124_consen 237 LFILWIIFALINSLYSFYWDVKMDWGLFQPKKKSKNWLLRRRLLYPRKWFYYFAII-LNFILRFAWILTLSPPHFSHIDN 315 (345)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccCCccccCCCCCccccccCCcchhhhHHH-HHHHHHHHHHHHHHHhhcchhhh
Confidence 68899999999999999999999999999885458999999999999999999998 353 3322 3
Q ss_pred hhHHHHHHHHHhhhhcccC
Q psy12163 70 IQFLQSITCLGGVVKTLAW 88 (88)
Q Consensus 70 ~~~~~~~~~~lEi~RR~iW 88 (88)
.+...++++++||+||++|
T Consensus 316 ~~~~~~~~~~lEi~RR~iW 334 (345)
T PF03124_consen 316 SEIFIFILAILEIFRRFIW 334 (345)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 4677899999999999999
No 2
>KOG1162|consensus
Probab=99.87 E-value=1.7e-23 Score=169.69 Aligned_cols=83 Identities=25% Similarity=0.608 Sum_probs=72.4
Q ss_pred CcchhHhHHHHHHhhhhhhhhhhcccccCcCCCCCCCCCCCCcccccCCCceEEEEEEE---EcCcchhh----------
Q psy12163 3 NPFFYPWLAASVISSIYSYIWDIKMDWGLFDKNAPPDNPFLREETVYSSTTSTLIGYVL---FNPTGILM---------- 69 (88)
Q Consensus 3 ~~~~~~wi~~~~inS~Ys~~WDv~mDWgL~~~~~~~~~~~LR~~l~y~~~~~Yy~Aiv~---~n~~~~~~---------- 69 (88)
++++.+|++++.+||+|+++||++|||||+++++ + ++||++++||+|++||+||+. ++..|+++
T Consensus 486 ~~~~~l~~~~s~vaS~y~~~WDvv~DWgLl~~~~--~-~~lRd~l~~p~k~vYy~aiv~N~vLR~aW~~~~i~~~~~~~~ 562 (617)
T KOG1162|consen 486 SLWFALWILSSKVASLYTTYWDVVMDWGLLNRKS--K-PWLRDNLLYPQKWVYYSAIVLNFVLRFAWFFKTILVFHEEFL 562 (617)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHheecccccccC--c-hhhHHHhcccchheehhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4789999999999999999999999999999886 4 999999999999999999983 23456321
Q ss_pred hhHHHHHHHHHhhhhcccC
Q psy12163 70 IQFLQSITCLGGVVKTLAW 88 (88)
Q Consensus 70 ~~~~~~~~~~lEi~RR~iW 88 (88)
.+.++++++.+||+||++|
T Consensus 563 ~~~~~~i~a~LEIiRRfiW 581 (617)
T KOG1162|consen 563 SDSMVFIMALLEIIRRFIW 581 (617)
T ss_pred HHHHHHHHHHHHHHHhhhh
Confidence 3567899999999999999
No 3
>COG5409 EXS domain-containing protein [Signal transduction mechanisms]
Probab=99.59 E-value=1.1e-16 Score=123.36 Aligned_cols=78 Identities=23% Similarity=0.371 Sum_probs=61.5
Q ss_pred chhHhHHHHHHhhhhhhhhhhcccccCcCCCCCCCCCCCCcccccCCCceEEEEEEEEcC----cchh---------hh-
Q psy12163 5 FFYPWLAASVISSIYSYIWDIKMDWGLFDKNAPPDNPFLREETVYSSTTSTLIGYVLFNP----TGIL---------MI- 70 (88)
Q Consensus 5 ~~~~wi~~~~inS~Ys~~WDv~mDWgL~~~~~~~~~~~LR~~l~y~~~~~Yy~Aiv~~n~----~~~~---------~~- 70 (88)
++.+|++++.+||+||+.|||.|||++..+.++ .+..+|++++++ |++||++ |. .|+. +.
T Consensus 265 l~~l~~~~a~lnS~yT~~WDV~mDW~l~~~~~~-~~~~kr~~~~l~----y~~a~~i-nFllR~~Wi~~~~~~~~~~~~~ 338 (384)
T COG5409 265 LFHLQIWFALLNSIYTSFWDVFMDWSLDSLTSL-RSWSKRAVTLLK----YHIAMII-NFLLRFSWIVYYLPPNHIQHSA 338 (384)
T ss_pred eehHHHHHHHHHHHHHHhHHhheeeeecccccc-hhccccchhHHH----HHHHHHH-HHHHHHHHHHhhcchhhhhhhh
Confidence 678999999999999999999999999777653 456778888777 8898873 43 3432 11
Q ss_pred hHHHHHHHHHhhhhcccC
Q psy12163 71 QFLQSITCLGGVVKTLAW 88 (88)
Q Consensus 71 ~~~~~~~~~lEi~RR~iW 88 (88)
+...|+++.+||+||++|
T Consensus 339 ~~~~F~m~~lEi~RR~vW 356 (384)
T COG5409 339 DIFIFIMQLLEILRRFVW 356 (384)
T ss_pred hhHHHHHHHHHHHHhhee
Confidence 222289999999999999
No 4
>PF12980 DUF3864: Domain of Unknown Function with PDB structure (DUF3864); InterPro: IPR024335 This entry represents a functionally uncharacterised domain found in bacterial sequences. The structure of one of the sequences, A6LGL1 from SWISSPROT from Parabacteroides distasonis atcc 8503, has been determined.; PDB: 3LM3_A.
Probab=19.62 E-value=53 Score=20.55 Aligned_cols=11 Identities=27% Similarity=0.622 Sum_probs=3.1
Q ss_pred cccccCcCCCC
Q psy12163 26 KMDWGLFDKNA 36 (88)
Q Consensus 26 ~mDWgL~~~~~ 36 (88)
.+||+|++..+
T Consensus 39 akdwsl~n~in 49 (82)
T PF12980_consen 39 AKDWSLMNVIN 49 (82)
T ss_dssp --B----SSB-
T ss_pred ccchHHHHHHh
Confidence 46999987763
No 5
>PF08412 Ion_trans_N: Ion transport protein N-terminal; InterPro: IPR013621 This domain is found to the N terminus of IPR005821 from INTERPRO in voltage- and cyclic nucleotide-gated K/Na ion channels.
Probab=18.26 E-value=43 Score=20.75 Aligned_cols=12 Identities=33% Similarity=0.847 Sum_probs=9.3
Q ss_pred hhhhhhhhhhcc
Q psy12163 16 SSIYSYIWDIKM 27 (88)
Q Consensus 16 nS~Ys~~WDv~m 27 (88)
.|.+.++||+.|
T Consensus 42 ~S~fR~~WD~~m 53 (77)
T PF08412_consen 42 FSKFRFYWDLIM 53 (77)
T ss_pred CccHHHHHHHHH
Confidence 367788999876
No 6
>PRK00104 scpA segregation and condensation protein A; Reviewed
Probab=12.85 E-value=1.5e+02 Score=21.63 Aligned_cols=17 Identities=18% Similarity=0.235 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHhhhhcc
Q psy12163 70 IQFLQSITCLGGVVKTL 86 (88)
Q Consensus 70 ~~~~~~~~~~lEi~RR~ 86 (88)
.++.+.++|+||++|+.
T Consensus 204 ~~~v~tFLAlLEL~k~~ 220 (242)
T PRK00104 204 NEFVVTFLALLELIKLQ 220 (242)
T ss_pred hhhHHHHHHHHHHHhcC
Confidence 35677899999999975
No 7
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=11.65 E-value=1.1e+02 Score=27.06 Aligned_cols=21 Identities=29% Similarity=0.714 Sum_probs=18.2
Q ss_pred HHHHHhhhhhhhhhhcccccC
Q psy12163 11 AASVISSIYSYIWDIKMDWGL 31 (88)
Q Consensus 11 ~~~~inS~Ys~~WDv~mDWgL 31 (88)
+..+.+++|.|.||...||=|
T Consensus 630 f~~a~~~ly~F~W~~fcD~Yl 650 (877)
T COG0525 630 FDEAARALYEFIWNDFCDWYL 650 (877)
T ss_pred HHHHHHHHHHHhHHHHHHHHH
Confidence 345678999999999999998
No 8
>PF02616 ScpA_ScpB: ScpA/B protein; InterPro: IPR003768 This family represents ScpA, which along with ScpB (IPR005234 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes [].
Probab=10.07 E-value=1.7e+02 Score=20.93 Aligned_cols=17 Identities=18% Similarity=0.096 Sum_probs=14.2
Q ss_pred hhHHHHHHHHHhhhhcc
Q psy12163 70 IQFLQSITCLGGVVKTL 86 (88)
Q Consensus 70 ~~~~~~~~~~lEi~RR~ 86 (88)
.+..+.++|+||++|+.
T Consensus 208 ~~~V~tFLAlLeL~k~~ 224 (242)
T PF02616_consen 208 SEVVVTFLALLELVKQG 224 (242)
T ss_pred CeeHHHHHHHHHHhhcC
Confidence 45678999999999975
No 9
>PF12534 DUF3733: Leucine-rich repeat containing protein 8 ; InterPro: IPR021040 This entry represents a conserved domain, approximately 60 amino acids in length, found in a number of eukaryotic protein; mostly as a duplicated N-terminal domain in proteins having a C-terminal leucine-rich repeat domain (PF00560 from PFAM). Each domain contains two completely conserved residues (W and Y) that may be functionally important. Most of the proteins in this entry are annotated as leucine-rich repeat containing protein 8, but beyond that there is little known about their function.
Probab=9.83 E-value=91 Score=18.84 Aligned_cols=10 Identities=30% Similarity=0.660 Sum_probs=7.2
Q ss_pred hhhhhccccc
Q psy12163 21 YIWDIKMDWG 30 (88)
Q Consensus 21 ~~WDv~mDWg 30 (88)
=+||+.+|-=
T Consensus 22 PWwdvf~~YL 31 (65)
T PF12534_consen 22 PWWDVFFDYL 31 (65)
T ss_pred cHHHHHHHHH
Confidence 3788888864
No 10
>PF15018 InaF-motif: TRP-interacting helix
Probab=9.56 E-value=2e+02 Score=15.65 Aligned_cols=15 Identities=40% Similarity=0.829 Sum_probs=9.5
Q ss_pred HHHhhhhhhhhhhcc
Q psy12163 13 SVISSIYSYIWDIKM 27 (88)
Q Consensus 13 ~~inS~Ys~~WDv~m 27 (88)
..++--|.+.||=.|
T Consensus 22 i~LsiYY~f~W~p~~ 36 (38)
T PF15018_consen 22 IVLSIYYIFFWDPDM 36 (38)
T ss_pred HHHHHHHheeeCCCC
Confidence 344555888998543
Done!