Query 029330
Match_columns 195
No_of_seqs 30 out of 32
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 11:11:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029330.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029330hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06764 hypothetical protein; 82.0 2.1 4.6E-05 34.0 3.8 64 59-124 25-97 (105)
2 PF08669 GCV_T_C: Glycine clea 44.5 42 0.00091 23.8 3.9 31 97-128 64-94 (95)
3 smart00683 DM16 Repeats in sea 40.2 20 0.00044 25.5 1.7 20 86-105 8-27 (55)
4 PF12580 TPPII: Tripeptidyl pe 38.3 1E+02 0.0023 26.5 6.0 54 123-194 9-64 (194)
5 PF15436 PGBA_N: Plasminogen-b 28.1 72 0.0016 28.1 3.5 49 129-185 45-93 (218)
6 COG1465 Predicted alternative 24.8 81 0.0018 30.0 3.3 59 76-140 273-341 (376)
7 KOG3413 Mitochondrial matrix p 24.7 49 0.0011 28.3 1.7 24 3-32 92-115 (156)
8 PF13344 Hydrolase_6: Haloacid 22.5 44 0.00094 24.7 0.9 18 113-130 1-19 (101)
9 COG3168 PilP Tfp pilus assembl 18.4 90 0.0019 27.0 2.1 25 137-168 129-153 (170)
10 PF03144 GTP_EFTU_D2: Elongati 18.3 3.1E+02 0.0066 18.2 5.1 40 119-166 6-50 (74)
No 1
>PRK06764 hypothetical protein; Provisional
Probab=81.96 E-value=2.1 Score=34.04 Aligned_cols=64 Identities=25% Similarity=0.307 Sum_probs=44.3
Q ss_pred ccccccceeeEEeecccccceeeee------ecCceec-ccCCcccee--eEEecCCCCCCceeEEeeeceeEee
Q 029330 59 VKKVSTLTLPLVISEKLQLTKAFVE------CEGESID-LSGDMGAVG--RILVPGTAEGNHVMFLDLKGTIYKT 124 (195)
Q Consensus 59 ~~svS~g~lPLvlpekv~rsK~LvE------~eg~slD-LsGD~GAVG--Rl~V~~s~~~~~~L~LDLKG~iY~a 124 (195)
+|+||+.+.|-+--|+++.-.+.+- +.|.++| ||||.-||- ...+.= +....-.+-..|+||+-
T Consensus 25 epsvs~ae~~q~~~enfn~i~v~mn~~e~y~lsgrsidilsgdkeaiqlnkyti~f--~kpg~yvirvngciy~d 97 (105)
T PRK06764 25 EPSVSAAESQQVKEENFNAIDVSMNINELYVLSGRSIDVLSGDKEAIQLNKYTIRF--SKPGKYVIRVNGCIYND 97 (105)
T ss_pred ccccchhcchhhhhcccceEEEEEeccceEEEcCceeeeecCChhheEeeeeEEEe--cCCccEEEEEccEEeee
Confidence 8999999999888888875444443 3378999 799999984 222321 12234677788999974
No 2
>PF08669 GCV_T_C: Glycine cleavage T-protein C-terminal barrel domain; InterPro: IPR013977 This entry shows glycine cleavage T-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. The T-protein is an aminomethyl transferase. ; PDB: 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 3GIR_A 1WOO_A 1WOS_A 1WOR_A ....
Probab=44.50 E-value=42 Score=23.82 Aligned_cols=31 Identities=16% Similarity=0.169 Sum_probs=20.8
Q ss_pred ceeeEEecCCCCCCceeEEeeeceeEeeEEec
Q 029330 97 AVGRILVPGTAEGNHVMFLDLKGTIYKTTLVP 128 (195)
Q Consensus 97 AVGRl~V~~s~~~~~~L~LDLKG~iY~atIVP 128 (195)
|.|+|-.... ..+.+|.++..|..|+|+|++
T Consensus 64 ala~v~~~~~-~~g~~l~v~~~g~~~~a~v~~ 94 (95)
T PF08669_consen 64 ALAYVDREYA-EPGTELEVEIRGKRVPATVVK 94 (95)
T ss_dssp EEEEEEGGGG-STTSEEEEEETTEEEEEEEE-
T ss_pred EEEEECHHHc-CCCCEEEEEECCEEEEEEEeC
Confidence 3444443322 234689999999999999986
No 3
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=40.20 E-value=20 Score=25.49 Aligned_cols=20 Identities=25% Similarity=0.428 Sum_probs=17.2
Q ss_pred CceecccCCccceeeEEecC
Q 029330 86 GESIDLSGDMGAVGRILVPG 105 (195)
Q Consensus 86 g~slDLsGD~GAVGRl~V~~ 105 (195)
.+--|++||.|-.|++.+.+
T Consensus 8 ~~Ved~kgn~G~~G~l~VTN 27 (55)
T smart00683 8 NGVEDTKGNNGDLGVFFVTN 27 (55)
T ss_pred cCeEecCCCCCCeeEEEEEe
Confidence 45679999999999999964
No 4
>PF12580 TPPII: Tripeptidyl peptidase II ; InterPro: IPR022229 This entry represents a region of approximately 190 amino acids in length and is found in association with PF00082 from PFAM. The members are serine peptidases belonging to MEROPS peptidase family S8A, tripeptidyl peptidase II (TPPII), clan SB. They are a crucial component of the proteolytic cascade acting downstream of the 26S proteasome in the ubiquitin-proteasome pathway. It is an amino peptidase belonging to the subtilase family removing tripeptides from the free N terminus of oligopeptides. ; PDB: 3LXU_X.
Probab=38.28 E-value=1e+02 Score=26.49 Aligned_cols=54 Identities=26% Similarity=0.341 Sum_probs=32.4
Q ss_pred eeEEecCce--EEEEEeCCCceeEEecCCCccceeccceeeEeccCcceeeeeccceEEEEEEeeeecceeeee
Q 029330 123 KTTLVPSRT--FCIVSFGHPEAKVCCKSSPFSLILVDFPILILLLSKSVIYIFSSSLVIFQIVYDFDIAKTTVV 194 (195)
Q Consensus 123 ~atIVPs~T--~~VVsvg~tEAKVEc~~s~f~si~~dFvqLr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (195)
.=+|-|+++ =.++.+-++|+||.++. .+|- | ++...+|+ ..+.|.|.++|++=|
T Consensus 9 ~E~l~P~~~L~~~~~~lrP~e~kI~pL~------~RD~--l---p~grqiy~-------L~LtY~f~~~k~~eV 64 (194)
T PF12580_consen 9 SEELQPSASLKTWVQPLRPTESKIRPLG------PRDV--L---PDGRQIYE-------LVLTYNFKLAKAGEV 64 (194)
T ss_dssp -EEEEEEEEEEEEEEEE--S-EEEEE--------SSSE--E---TTTEE-EE-------EEEEEEEEESS-EEE
T ss_pred eeEeeeEEEEEEEEEEeccCcceEeeCc------hhhc--C---CCCceeEE-------EEEEEEEecCCceeE
Confidence 446889984 67889999999999442 2332 2 55666676 347899999987643
No 5
>PF15436 PGBA_N: Plasminogen-binding protein pgbA N-terminal
Probab=28.10 E-value=72 Score=28.12 Aligned_cols=49 Identities=18% Similarity=0.112 Sum_probs=38.0
Q ss_pred CceEEEEEeCCCceeEEecCCCccceeccceeeEeccCcceeeeeccceEEEEEEee
Q 029330 129 SRTFCIVSFGHPEAKVCCKSSPFSLILVDFPILILLLSKSVIYIFSSSLVIFQIVYD 185 (195)
Q Consensus 129 s~T~~VVsvg~tEAKVEc~~s~f~si~~dFvqLr~~~~~~~~~~~~~~~~~~~~~~~ 185 (195)
.+.+.|+++..+-||++ +++|.++.++-. |..++.-+.+-.|||-..||
T Consensus 45 iA~a~V~~~~~g~A~~k--f~~fd~L~Q~aL------P~p~~~pk~GD~vil~~~Y~ 93 (218)
T PF15436_consen 45 IARAVVISKKNGVAKAK--FSVFDSLKQDAL------PTPKMVPKKGDEVILNYLYN 93 (218)
T ss_pred eeEEEEEEecCCeeEEE--EeehhhhhhhcC------CCCccccCCCCEEEEeeccc
Confidence 35678899999999998 999999998874 44555556667788887776
No 6
>COG1465 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]
Probab=24.79 E-value=81 Score=30.04 Aligned_cols=59 Identities=24% Similarity=0.393 Sum_probs=39.1
Q ss_pred ccceeeeeec-Cc---eecccCC--ccceeeEEecCCCCCCceeEE---eeeceeEeeEEecCc-eEEEEEeCCC
Q 029330 76 QLTKAFVECE-GE---SIDLSGD--MGAVGRILVPGTAEGNHVMFL---DLKGTIYKTTLVPSR-TFCIVSFGHP 140 (195)
Q Consensus 76 ~rsK~LvE~e-g~---slDLsGD--~GAVGRl~V~~s~~~~~~L~L---DLKG~iY~atIVPs~-T~~VVsvg~t 140 (195)
+|||.|.|+. |+ -+|..|- .+.|||+-++. +.|.| --+|..-+ +|+--+ |+=+|+-..+
T Consensus 273 ~kTkYLaEL~aGDeV~iVD~dGr~R~aiVGRvKIEr-----RPl~lIeAey~g~~i~-tiLQNAETIkLv~~dG~ 341 (376)
T COG1465 273 GKTKYLAELKAGDEVLIVDFDGRTRSAIVGRVKIER-----RPLMLIEAEYEGVEIS-TILQNAETIKLVNPDGE 341 (376)
T ss_pred CceEEhhhhcCCCeEEEEecCCceeEEEEEEEEeec-----CceEEEEEEecCcEEE-EEeccceeEEEEcCCCc
Confidence 4899999999 44 6788886 47899999985 44443 23344333 455555 7777665554
No 7
>KOG3413 consensus Mitochondrial matrix protein frataxin, involved in Fe/S protein biosynthesis [Inorganic ion transport and metabolism]
Probab=24.68 E-value=49 Score=28.26 Aligned_cols=24 Identities=33% Similarity=0.268 Sum_probs=19.7
Q ss_pred eeeeeecCCCcceEeeCCCCCcCCCCchhh
Q 029330 3 TSFIVEQAPKSSILALSSDSESCKDSSLLR 32 (195)
Q Consensus 3 ~~~i~~~apk~s~~~LsSdSes~~d~s~~~ 32 (195)
|-.|-+|.|+|-||. |+|.++|+|
T Consensus 92 TYViNKQ~PnkQIWl------SSP~SGPkr 115 (156)
T KOG3413|consen 92 TYVINKQPPNKQIWL------SSPVSGPKR 115 (156)
T ss_pred eEEecCCCCcceeee------eCCCCCCcc
Confidence 556889999999996 568888855
No 8
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=22.46 E-value=44 Score=24.68 Aligned_cols=18 Identities=28% Similarity=0.767 Sum_probs=13.8
Q ss_pred eEEeeeceeEe-eEEecCc
Q 029330 113 MFLDLKGTIYK-TTLVPSR 130 (195)
Q Consensus 113 L~LDLKG~iY~-atIVPs~ 130 (195)
+.+|+-|++|+ .+.+|.+
T Consensus 1 ~l~D~dGvl~~g~~~ipga 19 (101)
T PF13344_consen 1 FLFDLDGVLYNGNEPIPGA 19 (101)
T ss_dssp EEEESTTTSEETTEE-TTH
T ss_pred CEEeCccEeEeCCCcCcCH
Confidence 46899999999 5677765
No 9
>COG3168 PilP Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=18.39 E-value=90 Score=27.03 Aligned_cols=25 Identities=24% Similarity=0.246 Sum_probs=22.4
Q ss_pred eCCCceeEEecCCCccceeccceeeEeccCcc
Q 029330 137 FGHPEAKVCCKSSPFSLILVDFPILILLLSKS 168 (195)
Q Consensus 137 vg~tEAKVEc~~s~f~si~~dFvqLr~~~~~~ 168 (195)
+||+--||+ .|.+|.|-|+|+.+.+
T Consensus 129 lGqN~GrV~-------rI~d~~i~l~Elv~dG 153 (170)
T COG3168 129 LGQNYGRVV-------RITDDSIVLNELVPDG 153 (170)
T ss_pred eeccCceEE-------EecCCeEEeeeeccCc
Confidence 467889999 9999999999998875
No 10
>PF03144 GTP_EFTU_D2: Elongation factor Tu domain 2; InterPro: IPR004161 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF1A (also known as EF-1alpha or EF-Tu) is a G-protein. It forms a ternary complex of EF1A-GTP-aminoacyltRNA. The binding of aminoacyl-tRNA stimulates GTP hydrolysis by EF1A, causing a conformational change in EF1A that causes EF1A-GDP to detach from the ribosome, leaving the aminoacyl-tRNA attached at the A-site. Only the cognate aminoacyl-tRNA can induce the required conformational change in EF1A through its tight anticodon-codon binding [, ]. EF1A-GDP is returned to its active state, EF1A-GTP, through the action of another elongation factor, EF1B (also known as EF-Ts or EF-1beta/gamma/delta). EF1A consists of three structural domains. This entry represents domain 2 of EF2, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA []. This domain is structurally related to the C-terminal domain of EF2 (IPR004160 from INTERPRO), to which it displays weak sequence matches. This domain is also found in other proteins such as translation initiation factor IF-2 and tetracycline-resistance proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 3MCA_A 3AGJ_E 1SKQ_B 1JNY_A 1S0U_A 1ZUN_B 3SFS_W 3UOQ_W 2H5E_B 2XEX_A ....
Probab=18.29 E-value=3.1e+02 Score=18.18 Aligned_cols=40 Identities=15% Similarity=0.145 Sum_probs=27.6
Q ss_pred ceeEeeEEecCceEEEEEeCCCc-----eeEEecCCCccceeccceeeEeccC
Q 029330 119 GTIYKTTLVPSRTFCIVSFGHPE-----AKVCCKSSPFSLILVDFPILILLLS 166 (195)
Q Consensus 119 G~iY~atIVPs~T~~VVsvg~tE-----AKVEc~~s~f~si~~dFvqLr~~~~ 166 (195)
|.+|.++|-+.-++.+.. +.++ +||. +|....-..++..+
T Consensus 6 grV~sG~l~~gd~v~~~~-~~~~~~~~~~~I~-------~i~~~~~~~~~~~~ 50 (74)
T PF03144_consen 6 GRVYSGTLKKGDKVRVLP-NGTGKKGQVVKIK-------SIFMFNGDVQEAVA 50 (74)
T ss_dssp EEEEESEEETTEEEEEES-TTTTEECEEEEEE-------EEEETTEEESEEET
T ss_pred EEEEEeEEcCCCEEEECc-cCCcceeeeeecc-------cccccccCccEeCC
Confidence 689999999999999988 6554 5666 66555444433333
Done!