Query 030655
Match_columns 174
No_of_seqs 116 out of 354
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 02:35:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030655.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030655hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04398 DUF538: Protein of un 100.0 6.7E-46 1.5E-50 283.2 6.8 109 27-138 1-110 (110)
2 PF07172 GRP: Glycine rich pro 48.8 15 0.00034 27.4 2.3 19 1-19 1-20 (95)
3 cd03697 EFTU_II EFTU_II: Elong 42.6 72 0.0016 22.4 4.9 34 77-112 15-52 (87)
4 PF05984 Cytomega_UL20A: Cytom 41.8 25 0.00055 26.5 2.5 21 1-21 1-21 (100)
5 cd02410 archeal_CPSF_KH The ar 41.3 32 0.00069 27.9 3.2 36 26-67 52-89 (145)
6 PF11153 DUF2931: Protein of u 36.5 48 0.001 27.4 3.7 102 1-108 1-108 (216)
7 PF07494 Reg_prop: Two compone 35.2 44 0.00095 18.5 2.3 18 42-60 2-20 (24)
8 PRK09455 rseB anti-sigma E fac 29.5 3.8E+02 0.0082 23.9 8.4 60 26-100 26-85 (319)
9 PRK15184 curli production asse 29.3 69 0.0015 28.6 3.6 58 1-61 1-66 (277)
10 PF10262 Rdx: Rdx family; Int 29.2 65 0.0014 22.3 2.8 12 54-65 41-52 (76)
11 cd01215 Dab Disabled (Dab) Pho 27.6 2.2E+02 0.0048 22.8 6.0 54 72-125 11-80 (139)
12 PF15284 PAGK: Phage-encoded v 26.7 34 0.00075 24.0 1.0 8 36-43 33-40 (61)
13 cd03690 Tet_II Tet_II: This su 26.6 1.4E+02 0.003 21.0 4.2 53 72-124 18-73 (85)
14 PRK11657 dsbG disulfide isomer 24.7 3.8E+02 0.0083 22.7 7.3 50 22-71 20-72 (251)
15 smart00540 LEM in nuclear memb 24.4 58 0.0013 21.2 1.7 18 25-42 8-25 (44)
16 COG3117 Uncharacterized protei 23.4 1.6E+02 0.0035 24.9 4.6 62 1-64 2-64 (188)
17 cd03700 eEF2_snRNP_like_II EF2 22.7 2.8E+02 0.0061 19.5 6.4 55 71-125 15-82 (93)
18 KOG2455 Delta-1-pyrroline-5-ca 21.9 53 0.0012 31.6 1.6 16 27-42 241-256 (561)
19 PF02402 Lysis_col: Lysis prot 21.7 42 0.00092 22.3 0.7 26 73-98 20-46 (46)
20 PRK12442 translation initiatio 21.3 2.1E+02 0.0045 21.4 4.4 53 55-123 19-71 (87)
21 PF12276 DUF3617: Protein of u 20.8 86 0.0019 24.2 2.4 15 1-15 1-15 (162)
22 PRK13488 chemoreceptor glutami 20.8 1.7E+02 0.0037 23.6 4.2 36 26-64 110-151 (157)
No 1
>PF04398 DUF538: Protein of unknown function, DUF538; InterPro: IPR007493 This family consists of several plant proteins of unknown function.; PDB: 1YDU_A.
Probab=100.00 E-value=6.7e-46 Score=283.23 Aligned_cols=109 Identities=47% Similarity=0.924 Sum_probs=83.3
Q ss_pred cHHHHHHhcCCCCCCCCCCceeEEEeCCCcEEEEEecCceeEEece-eEEEccEEEEEEeccccccccceeEEEEEeeee
Q 030655 27 SIYDHLKAHGLPIGILPKGITEYSVDPTSGFFQINLTEPCDAKFEN-QFHYDFNISGYLSMGKIGELSGVSQQELFLWFP 105 (174)
Q Consensus 27 ta~elL~~~gLP~GLLP~~V~~y~l~~~tG~f~V~L~~~C~~~f~~-~v~Y~~~ItG~i~~G~I~~L~GVkvK~lflWv~ 105 (174)
||||+|++||||+||||++|++|+||++||+|||+|+++|+|+|+. +|+|+++|||+|++|+|++|+|||+|++|+|++
T Consensus 1 tayelL~~~glP~GLLP~~v~~y~l~~~tG~f~v~l~~~C~~~~~~~~v~Y~~~ItG~i~~g~i~~L~GVk~k~l~~W~~ 80 (110)
T PF04398_consen 1 TAYELLEEYGLPRGLLPLGVTEYGLNRDTGFFWVKLKSPCEFRFEGYLVSYDSEITGYIEKGKIKNLTGVKVKELFLWVP 80 (110)
T ss_dssp --HHHHHHHS-TT-TTTSSS-EEEE-TTT-SEEEE-SS-EEEESTTSEEEE-SEEEEEE-SS-EEEEES-EEE-SSSEES
T ss_pred CHHHhHHHcCCCCCcCCCCceEEEEecCCcEEEEEecCCEEEEEEEEEEEEcCeEEEEECCCcCccccCEEEEEEEEEee
Confidence 7999999999999999999999999999999999999999999984 999999999999999999999999999999999
Q ss_pred eeEEEEcCCCCCeEEEEEceeeeeeccccccCC
Q 030655 106 VRCIRVDDPSSGLIYFDVGVVDKQFSLSLFEDP 138 (174)
Q Consensus 106 I~eI~vd~p~~~~I~F~vG~~sksFP~s~F~~~ 138 (174)
|++|.++ +++|+|++|.++++||+++|++|
T Consensus 81 v~~i~~~---~~~i~F~~g~~s~sfp~~~F~~s 110 (110)
T PF04398_consen 81 VTEISVD---GDKIYFKVGGISKSFPVSAFEES 110 (110)
T ss_dssp ---BEE----SSSEE-TTSSSS----TTTTSS-
T ss_pred EEEEEEc---CCEEEEEEeeEeccCCHHHhccC
Confidence 9999995 89999999999999999999986
No 2
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=48.79 E-value=15 Score=27.40 Aligned_cols=19 Identities=32% Similarity=0.434 Sum_probs=8.3
Q ss_pred CchhhHHHH-HHHHHHhhhh
Q 030655 1 MNRRIILWA-ILLVGLCRIE 19 (174)
Q Consensus 1 ~~~~~~~~~-~l~~~~~~~~ 19 (174)
|..+.+|++ ++++++++++
T Consensus 1 MaSK~~llL~l~LA~lLlis 20 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLIS 20 (95)
T ss_pred CchhHHHHHHHHHHHHHHHH
Confidence 554444444 4444444443
No 3
>cd03697 EFTU_II EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven a-helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Either non-catalytic domain is composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: in a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA, and in an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher
Probab=42.57 E-value=72 Score=22.45 Aligned_cols=34 Identities=21% Similarity=0.170 Sum_probs=23.8
Q ss_pred ccEEEEEEeccccccccceeEEEE----EeeeeeeEEEEc
Q 030655 77 DFNISGYLSMGKIGELSGVSQQEL----FLWFPVRCIRVD 112 (174)
Q Consensus 77 ~~~ItG~i~~G~I~~L~GVkvK~l----flWv~I~eI~vd 112 (174)
.+.++|+|+.|+|+ .|-++..+ .....|..|.+.
T Consensus 15 G~vv~G~v~~G~v~--~gd~v~~~p~~~~~~~~V~si~~~ 52 (87)
T cd03697 15 GTVVTGRIERGTIK--VGDEVEIVGFGETLKTTVTGIEMF 52 (87)
T ss_pred EEEEEEEECCCCCc--cCCEEEEeCCCCCceEEEEEEEEC
Confidence 45799999999998 44444433 456677777765
No 4
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=41.84 E-value=25 Score=26.52 Aligned_cols=21 Identities=33% Similarity=0.404 Sum_probs=16.1
Q ss_pred CchhhHHHHHHHHHHhhhhhh
Q 030655 1 MNRRIILWAILLVGLCRIEAK 21 (174)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~~ 21 (174)
|-||.+++.+|...++++.|+
T Consensus 1 MaRRlwiLslLAVtLtVALAA 21 (100)
T PF05984_consen 1 MARRLWILSLLAVTLTVALAA 21 (100)
T ss_pred CchhhHHHHHHHHHHHHHhhc
Confidence 788988888888777776543
No 5
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=41.32 E-value=32 Score=27.91 Aligned_cols=36 Identities=25% Similarity=0.344 Sum_probs=29.2
Q ss_pred ccHHHHHHhcCCCCCCCC--CCceeEEEeCCCcEEEEEecCcee
Q 030655 26 SSIYDHLKAHGLPIGILP--KGITEYSVDPTSGFFQINLTEPCD 67 (174)
Q Consensus 26 ~ta~elL~~~gLP~GLLP--~~V~~y~l~~~tG~f~V~L~~~C~ 67 (174)
+.|.++..+ +.| .++++.-+|++||.++++..++=.
T Consensus 52 e~A~~~I~~------ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ 89 (145)
T cd02410 52 EEAIKIILE------IVPEEAGITDIYFDDDTGEVIIEAEKPGL 89 (145)
T ss_pred HHHHHHHHH------hCCCccCceeeEecCCCcEEEEEEcCCeE
Confidence 467777766 567 689999999999999999998843
No 6
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=36.54 E-value=48 Score=27.36 Aligned_cols=102 Identities=15% Similarity=0.135 Sum_probs=51.5
Q ss_pred CchhhHHHHHHHHHHhhhhhhccCCccHHHHHHhcCCCCCCCCCCceeEEEeCCCcEEEEEec--CceeEEec----eeE
Q 030655 1 MNRRIILWAILLVGLCRIEAKAQASSSIYDHLKAHGLPIGILPKGITEYSVDPTSGFFQINLT--EPCDAKFE----NQF 74 (174)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~~~~~~~ta~elL~~~gLP~GLLP~~V~~y~l~~~tG~f~V~L~--~~C~~~f~----~~v 74 (174)
|+.-++++++|+++.|........+ +-++---...-|++ +|-.|+.-.+..++|..+.... ..|- ..+ ..-
T Consensus 1 mk~i~~l~l~lll~~C~~~~~~~~~-~~~~W~~~~~~P~~-ypv~V~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 77 (216)
T PF11153_consen 1 MKKILLLLLLLLLTGCSTNPNEPLQ-PYFEWRFGVAAPKH-YPVWVTYAYFVDGDGDWYRFPTGDSTCM-DPERISGSVG 77 (216)
T ss_pred ChHHHHHHHHHHHHhhcCCCccCCC-CCCccEEEEecCCC-CEEEEEEEEEEeCCCcEEEEecccccee-ecccCCCccC
Confidence 6665555666666667654332211 33333333455665 4655665444444777754333 3332 111 233
Q ss_pred EEccEEEEEEeccccccccceeEEEEEeeeeeeE
Q 030655 75 HYDFNISGYLSMGKIGELSGVSQQELFLWFPVRC 108 (174)
Q Consensus 75 ~Y~~~ItG~i~~G~I~~L~GVkvK~lflWv~I~e 108 (174)
.|+.. +| ..|.-.+-..+-.+..+.|+++.+
T Consensus 78 ~W~~~-~~--~~~~~~~~~~lP~~i~i~W~S~~e 108 (216)
T PF11153_consen 78 GWGGF-GG--GSGYFNKGKPLPDSIYICWDSYAE 108 (216)
T ss_pred CcCcc-cc--cccccCCCCCCCCEEEEEEEEccc
Confidence 45554 22 222233444455678899998865
No 7
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=35.19 E-value=44 Score=18.48 Aligned_cols=18 Identities=33% Similarity=0.427 Sum_probs=12.1
Q ss_pred CC-CCceeEEEeCCCcEEEE
Q 030655 42 LP-KGITEYSVDPTSGFFQI 60 (174)
Q Consensus 42 LP-~~V~~y~l~~~tG~f~V 60 (174)
|| ..|.+.--|+ +|.+||
T Consensus 2 L~~n~I~~i~~D~-~G~lWi 20 (24)
T PF07494_consen 2 LPNNNIYSIYEDS-DGNLWI 20 (24)
T ss_dssp BSSSCEEEEEE-T-TSCEEE
T ss_pred CCCCeEEEEEEcC-CcCEEE
Confidence 45 5666665664 999998
No 8
>PRK09455 rseB anti-sigma E factor; Provisional
Probab=29.54 E-value=3.8e+02 Score=23.94 Aligned_cols=60 Identities=10% Similarity=0.051 Sum_probs=36.0
Q ss_pred ccHHHHHHhcCCCCCCCCCCceeEEEeCCCcEEEEEecCceeEEeceeEEEccEEEEEEeccccccccceeEEEE
Q 030655 26 SSIYDHLKAHGLPIGILPKGITEYSVDPTSGFFQINLTEPCDAKFENQFHYDFNISGYLSMGKIGELSGVSQQEL 100 (174)
Q Consensus 26 ~ta~elL~~~gLP~GLLP~~V~~y~l~~~tG~f~V~L~~~C~~~f~~~v~Y~~~ItG~i~~G~I~~L~GVkvK~l 100 (174)
+++.++|++.+ +....-.| .|.|....++.- + .++|--.+.+.-+.-+|..|+|-.-.++
T Consensus 26 ~~a~~~L~~M~-------~A~~~lnY---~g~fV~~~~~~i----~-s~ri~H~~~~~~e~erL~~LdG~~rEvi 85 (319)
T PRK09455 26 LSSGALLQQMN-------EASQSLNY---ELSFINITKQGI----E-SLRYRHARLDNKPLAQLLQMDGPRREII 85 (319)
T ss_pred cCHHHHHHHHH-------HHHHhCCe---EEEEEEEeCCeE----E-EEEEEEEEeCCEEEEEEEecCCCceEEE
Confidence 36888998864 22232223 366655443321 1 2345555667788889999999876665
No 9
>PRK15184 curli production assembly/transport protein CsgG; Provisional
Probab=29.34 E-value=69 Score=28.60 Aligned_cols=58 Identities=24% Similarity=0.427 Sum_probs=36.0
Q ss_pred CchhhHHHHHHHHHHhhhhh------h--ccCCccHHHHHHhcCCCCCCCCCCceeEEEeCCCcEEEEE
Q 030655 1 MNRRIILWAILLVGLCRIEA------K--AQASSSIYDHLKAHGLPIGILPKGITEYSVDPTSGFFQIN 61 (174)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~------~--~~~~~ta~elL~~~gLP~GLLP~~V~~y~l~~~tG~f~V~ 61 (174)
|.+-+++.++++++.|+... + ....+| |.-|...--|+|=+ .|-=|.+.+.||.+|-.
T Consensus 1 m~~~~~~~~~~~l~gc~~~~~~~~~~~~~~~~~~t-~~~l~~lp~P~~~~--~vaVy~f~D~TGq~k~~ 66 (277)
T PRK15184 1 MQRLFLLVAVMLLSGCLTAPPKEAARPTLMPRAQS-YKDLTHLPAPTGKI--FVSVYNIQDETGQFKPY 66 (277)
T ss_pred CchhHHHHHHHHhccccCCCCCCCCCccccCCCcc-HHHHhcCCCCCCCc--eEEeeccccCCCccccc
Confidence 66656666667778886431 1 122234 66666666666654 46667788889998873
No 10
>PF10262 Rdx: Rdx family; InterPro: IPR011893 This entry represents the Rdx family of selenoproteins, which includes mammalian selenoproteins SelW, SelV, SelT and SelH, bacterial SelW-like proteins and cysteine-containing proteins of unknown function in all three domains of life. Mammalian Rdx12 and its fish selenoprotein orthologues are also members of this family []. These proteins possess a thioredoxin-like fold and a conserved CXXC or CxxU (U is selenocysteine) motif near the N terminus, suggesting a redox function. Rdx proteins can use catalytic cysteine (or selenocysteine) to form transient mixed disulphides with substrate proteins. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins. Selenoprotein W (SelW) plays an important role in protection of neurons from oxidative stress during neuronal development [], []. Selenoprotein T (SelT) is conserved from plants to humans. SelT is localized to the endoplasmic reticulum through a hydrophobic domain. The protein binds to UDP-glucose:glycoprotein glucosyltransferase (UGTR), the endoplasmic reticulum (ER)-resident protein, which is known to be involved in the quality control of protein folding [, ]. The function of SelT is unknown, although it may have a role in PACAP signaling during PC12 cell differentiation [, ]. Selenoprotein H (SelH) protects neurons against UVB-induced damage by inhibiting apoptotic cell death pathways, by preventing mitochondrial depolarization, and by promoting cell survival pathways [].; GO: 0008430 selenium binding, 0045454 cell redox homeostasis; PDB: 2OJL_B 2FA8_A 2P0G_C 2NPB_A 3DEX_C 2OKA_A 2OBK_G.
Probab=29.22 E-value=65 Score=22.34 Aligned_cols=12 Identities=17% Similarity=0.573 Sum_probs=9.7
Q ss_pred CCcEEEEEecCc
Q 030655 54 TSGFFQINLTEP 65 (174)
Q Consensus 54 ~tG~f~V~L~~~ 65 (174)
.+|.|+|++++.
T Consensus 41 ~~G~FEV~v~g~ 52 (76)
T PF10262_consen 41 STGAFEVTVNGE 52 (76)
T ss_dssp STT-EEEEETTE
T ss_pred cCCEEEEEEccE
Confidence 599999999976
No 11
>cd01215 Dab Disabled (Dab) Phosphotyrosine-binding domain. Disabled (Dab) Phosphotyrosine-binding domain. Dab is a cystosolic adaptor protein, which binds to the cytoplasmic tails of lipoprotein receptors, such as ApoER2 and VLDLR, via its PTB domain. The dab PTB domain has a preference for unphosphorylated tyrosine within an NPxY motif. Additionally, the Dab PTB domain, which is structurally similar to PH domains, binds to phosphatidlyinositol phosphate 4,5 bisphosphate in a manner characteristic of phosphoinositide binding PH domains.
Probab=27.56 E-value=2.2e+02 Score=22.80 Aligned_cols=54 Identities=19% Similarity=0.314 Sum_probs=37.3
Q ss_pred eeEEEccEEEEEEecc----------ccccc------cceeEEEEEeeeeeeEEEEcCCCCCeEEEEEce
Q 030655 72 NQFHYDFNISGYLSMG----------KIGEL------SGVSQQELFLWFPVRCIRVDDPSSGLIYFDVGV 125 (174)
Q Consensus 72 ~~v~Y~~~ItG~i~~G----------~I~~L------~GVkvK~lflWv~I~eI~vd~p~~~~I~F~vG~ 125 (174)
..+.|..+.=|.++=. .|++| .|-+-+...+|+++.+|+|-++.++.|..+-.+
T Consensus 11 ~gv~f~aKylG~~eV~e~RG~~v~~~Ai~klk~~~k~~~~kk~kV~L~IS~dGi~v~D~~T~~ll~~~~i 80 (139)
T cd01215 11 NGVSYKAKLIGIQEVDKARGDAMCAEAMRKAKSIIKGAGAHKTRITLQINIDGIKVLDEKTGAVLHHHPV 80 (139)
T ss_pred CcEEEEEEecccEecccCCchHHHHHHHHHHHHHhhhhccccceEEEEEccCCEEEEcCCCCcEEEeece
Confidence 4566666666665543 12222 566778888999999999988888877766555
No 12
>PF15284 PAGK: Phage-encoded virulence factor
Probab=26.66 E-value=34 Score=24.03 Aligned_cols=8 Identities=38% Similarity=0.567 Sum_probs=3.1
Q ss_pred CCCCCCCC
Q 030655 36 GLPIGILP 43 (174)
Q Consensus 36 gLP~GLLP 43 (174)
..|.+..|
T Consensus 33 ~~~~~~~P 40 (61)
T PF15284_consen 33 RKPANIKP 40 (61)
T ss_pred CCCcCCCC
Confidence 33444333
No 13
>cd03690 Tet_II Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=26.62 E-value=1.4e+02 Score=20.98 Aligned_cols=53 Identities=19% Similarity=0.199 Sum_probs=36.5
Q ss_pred eeEEEccEEEEEEecccccccc-c--eeEEEEEeeeeeeEEEEcCCCCCeEEEEEc
Q 030655 72 NQFHYDFNISGYLSMGKIGELS-G--VSQQELFLWFPVRCIRVDDPSSGLIYFDVG 124 (174)
Q Consensus 72 ~~v~Y~~~ItG~i~~G~I~~L~-G--VkvK~lflWv~I~eI~vd~p~~~~I~F~vG 124 (174)
.++.|.+-.+|.|..|..-... + .+++.++.+..-....++....|.|.=-+|
T Consensus 18 G~la~~RV~sG~l~~g~~v~~~~~~~~~v~~l~~~~g~~~~~v~~~~aGdI~ai~g 73 (85)
T cd03690 18 ERLAYLRLYSGTLRLRDSVRVNREEKIKITELRVFNNGEVVTADTVTAGDIAILTG 73 (85)
T ss_pred CeEEEEEEccCEEcCCCEEEeCCCcEEEeceeEEEeCCCeEECcEECCCCEEEEEC
Confidence 4688999999999888543222 2 456678888777777777666777664444
No 14
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=24.66 E-value=3.8e+02 Score=22.75 Aligned_cols=50 Identities=20% Similarity=0.242 Sum_probs=35.0
Q ss_pred ccCCccHHHHHHhcCCCC-CC--CCCCceeEEEeCCCcEEEEEecCceeEEec
Q 030655 22 AQASSSIYDHLKAHGLPI-GI--LPKGITEYSVDPTSGFFQINLTEPCDAKFE 71 (174)
Q Consensus 22 ~~~~~ta~elL~~~gLP~-GL--LP~~V~~y~l~~~tG~f~V~L~~~C~~~f~ 71 (174)
+.+-+.+..-|++.|+.. .. -|.++.+|-....+..-.+|......+-+.
T Consensus 20 ~~~~p~~~~~l~~~g~~v~~~~~~p~~l~g~~~~~~~~~~i~Y~t~dg~y~i~ 72 (251)
T PRK11657 20 AEELPAPVKALEKQGITIIKTFDAPGGLKGYAAKYQDMGVTIYLTPDGKHAIS 72 (251)
T ss_pred hhcccHHHHHHHhCCCEEEEeecCCCCceEEEEEeCCCceEEEEcCCCCEEEE
Confidence 466678889999999987 44 378888888776434446777766655443
No 15
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=24.40 E-value=58 Score=21.22 Aligned_cols=18 Identities=33% Similarity=0.558 Sum_probs=14.2
Q ss_pred CccHHHHHHhcCCCCCCC
Q 030655 25 SSSIYDHLKAHGLPIGIL 42 (174)
Q Consensus 25 ~~ta~elL~~~gLP~GLL 42 (174)
.....+.|.+||+|.|=+
T Consensus 8 d~eL~~~L~~~G~~~gPI 25 (44)
T smart00540 8 DAELRAELKQYGLPPGPI 25 (44)
T ss_pred HHHHHHHHHHcCCCCCCc
Confidence 346778899999999843
No 16
>COG3117 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.39 E-value=1.6e+02 Score=24.87 Aligned_cols=62 Identities=21% Similarity=0.212 Sum_probs=36.5
Q ss_pred CchhhHHHHHHHHHHhhhhh-hccCCccHHHHHHhcCCCCCCCCCCceeEEEeCCCcEEEEEecC
Q 030655 1 MNRRIILWAILLVGLCRIEA-KAQASSSIYDHLKAHGLPIGILPKGITEYSVDPTSGFFQINLTE 64 (174)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~-~~~~~~ta~elL~~~gLP~GLLP~~V~~y~l~~~tG~f~V~L~~ 64 (174)
|++|.++.+++++++|...- ......+.-++-..-+.|. --=++...-.||+ .|...-++-+
T Consensus 2 ~~~Rw~~~ILll~a~~~~~w~~~~~~~~~~~v~~~~d~p~-Y~~e~~~~~~~de-~G~~~y~l~a 64 (188)
T COG3117 2 MSRRWVYLILLLAALALSGWLLGLEQDEIEQVRPNPDEPA-YTMEGLDTTVYDE-QGKLKYRLTA 64 (188)
T ss_pred cchhHHHHHHHHHHHHHHHHhhhcccccccccccCCCCCc-eeecCcceeEECC-CcceeEEeeh
Confidence 78898887777777766542 2222233333344445555 2226677777776 6887766654
No 17
>cd03700 eEF2_snRNP_like_II EF2_snRNP_like_II: this subfamily represents domain II of elongation factor (EF) EF-2 found eukaryotes and archaea and, the C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. This translocation step is catalyzed by EF-2_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p.
Probab=22.75 E-value=2.8e+02 Score=19.53 Aligned_cols=55 Identities=24% Similarity=0.260 Sum_probs=39.8
Q ss_pred ceeEEEccEEEEEEeccccccc-------------cceeEEEEEeeeeeeEEEEcCCCCCeEEEEEce
Q 030655 71 ENQFHYDFNISGYLSMGKIGEL-------------SGVSQQELFLWFPVRCIRVDDPSSGLIYFDVGV 125 (174)
Q Consensus 71 ~~~v~Y~~~ItG~i~~G~I~~L-------------~GVkvK~lflWv~I~eI~vd~p~~~~I~F~vG~ 125 (174)
...+.|-+-.+|.|..|.--.. ...+++.++++..-..+.++....|+|.--.|.
T Consensus 15 ~g~la~~RV~sGtl~~g~~v~~~~~~~~~~~~~~~~~~~v~~l~~~~g~~~~~v~~a~aGdIv~i~g~ 82 (93)
T cd03700 15 GGFIAFGRVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLMMGRYREPVDEVPAGNIVLIVGL 82 (93)
T ss_pred CEEEEEEEEeeCeEeCCCEEEEECCCCCCCccCcEEEEEEeEEEEEcCCCEEEccccCCCCEEEEECC
Confidence 3467888888898888854322 226777888888888788887778888776664
No 18
>KOG2455 consensus Delta-1-pyrroline-5-carboxylate dehydrogenase [Amino acid transport and metabolism]
Probab=21.86 E-value=53 Score=31.64 Aligned_cols=16 Identities=44% Similarity=0.864 Sum_probs=14.5
Q ss_pred cHHHHHHhcCCCCCCC
Q 030655 27 SIYDHLKAHGLPIGIL 42 (174)
Q Consensus 27 ta~elL~~~gLP~GLL 42 (174)
-+|.+|+|-|||.|.+
T Consensus 241 ii~~il~EAGlP~Gvi 256 (561)
T KOG2455|consen 241 IIYRILREAGLPPGVI 256 (561)
T ss_pred HHHHHHHHcCCCccce
Confidence 4799999999999987
No 19
>PF02402 Lysis_col: Lysis protein; InterPro: IPR003059 The DNA sequence of the entire colicin E2 operon has been determined []. The operon comprises the colicin activity gene (ceaB), the colicin immunity gene (ceiB) and the lysis gene (celB), which is essential for colicin release from producing cells []. A putative LexA binding site is located upstream from ceaB, and a rho-independent terminator structure is located downstream from celB []. Comparison of the amino acid sequences of colicin E2 and cloacin DF13 reveal extensive similarity. These colicins have different modes of action and recognise different cell surface receptors; the two major regions of heterology at the C terminus, and in the C-terminal end of the central region are thought to correspond to the catalytic and receptor-recognition domains, respectively []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. By contrast, the lysis proteins of the ColE2, ColE1 and CloDF13 plasmids are almost identical except in the N-terminal regions, which themselves are similar to lipoprotein signal peptides []. Processing of the ColE2 prolysis protein to the mature form is prevented by globomycin, a specific inhibitor of the lipoprotein signal peptidase []. The mature ColE2 lysis protein is located in the cell envelope [].; GO: 0009405 pathogenesis, 0019835 cytolysis, 0019867 outer membrane
Probab=21.66 E-value=42 Score=22.30 Aligned_cols=26 Identities=31% Similarity=0.432 Sum_probs=17.5
Q ss_pred eEEEccEEE-EEEeccccccccceeEE
Q 030655 73 QFHYDFNIS-GYLSMGKIGELSGVSQQ 98 (174)
Q Consensus 73 ~v~Y~~~It-G~i~~G~I~~L~GVkvK 98 (174)
++.|-+.+. |.+++-+-++|+||+++
T Consensus 20 QaN~iRDvqGGtVaPSSss~lTGv~~q 46 (46)
T PF02402_consen 20 QANYIRDVQGGTVAPSSSSELTGVAVQ 46 (46)
T ss_pred hhcceecCCCceECCCccceeeeeecC
Confidence 344544444 77888888888888763
No 20
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=21.29 E-value=2.1e+02 Score=21.39 Aligned_cols=53 Identities=23% Similarity=0.217 Sum_probs=37.9
Q ss_pred CcEEEEEecCceeEEeceeEEEccEEEEEEeccccccccceeEEEEEeeeeeeEEEEcCCCCCeEEEEE
Q 030655 55 SGFFQINLTEPCDAKFENQFHYDFNISGYLSMGKIGELSGVSQQELFLWFPVRCIRVDDPSSGLIYFDV 123 (174)
Q Consensus 55 tG~f~V~L~~~C~~~f~~~v~Y~~~ItG~i~~G~I~~L~GVkvK~lflWv~I~eI~vd~p~~~~I~F~v 123 (174)
++.|.|.|...++. -..|+|++.+.+|+=+.|=+|++- +|- - +++-|.|.|.-
T Consensus 19 ~~~frV~LenG~~v--------la~isGKmR~~rIrIl~GD~V~VE-~sp------Y-DltkGRIiyR~ 71 (87)
T PRK12442 19 DSRFRVTLENGVEV--------GAYASGRMRKHRIRILAGDRVTLE-LSP------Y-DLTKGRINFRH 71 (87)
T ss_pred CCEEEEEeCCCCEE--------EEEeccceeeeeEEecCCCEEEEE-ECc------c-cCCceeEEEEe
Confidence 67777777655433 366899999999999999998886 442 2 24567888764
No 21
>PF12276 DUF3617: Protein of unknown function (DUF3617); InterPro: IPR022061 This family of proteins is found in bacteria. Proteins in this family are typically between 155 and 179 amino acids in length. There is a single completely conserved residue C that may be functionally important.
Probab=20.83 E-value=86 Score=24.23 Aligned_cols=15 Identities=33% Similarity=0.390 Sum_probs=9.4
Q ss_pred CchhhHHHHHHHHHH
Q 030655 1 MNRRIILWAILLVGL 15 (174)
Q Consensus 1 ~~~~~~~~~~l~~~~ 15 (174)
|+|+.++++++++++
T Consensus 1 M~~~~~~~~~~~~~~ 15 (162)
T PF12276_consen 1 MKRRLLLALALALLA 15 (162)
T ss_pred CchHHHHHHHHHHHH
Confidence 777666666665544
No 22
>PRK13488 chemoreceptor glutamine deamidase CheD; Provisional
Probab=20.79 E-value=1.7e+02 Score=23.60 Aligned_cols=36 Identities=22% Similarity=0.284 Sum_probs=26.9
Q ss_pred ccHHHHHHhcCCCC------CCCCCCceeEEEeCCCcEEEEEecC
Q 030655 26 SSIYDHLKAHGLPI------GILPKGITEYSVDPTSGFFQINLTE 64 (174)
Q Consensus 26 ~ta~elL~~~gLP~------GLLP~~V~~y~l~~~tG~f~V~L~~ 64 (174)
..+.++|+++|+|. |--+. .-.++..||.+||+-.+
T Consensus 110 ~~a~~~L~~~gi~i~a~dvGG~~gR---~i~f~~~tG~v~vk~~~ 151 (157)
T PRK13488 110 ESAKETLKKLGIRIVAEDVGGDYGR---TVKFDLKTGKVIVRKAN 151 (157)
T ss_pred HHHHHHHHHCCCcEEEEEcCCCCCc---EEEEECCCCEEEEEEcC
Confidence 57899999999995 33332 44578889999997554
Done!