Query psy17858
Match_columns 157
No_of_seqs 105 out of 408
Neff 5.6
Searched_HMMs 46136
Date Sat Aug 17 00:50:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17858.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17858hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04950 DUF663: Protein of un 100.0 3.5E-66 7.6E-71 439.4 2.7 153 5-157 101-254 (297)
2 KOG1980|consensus 100.0 2.8E-54 6.1E-59 390.7 13.1 152 3-156 546-698 (754)
3 COG5192 BMS1 GTP-binding prote 100.0 1.4E-46 3.1E-51 340.3 -2.3 145 10-157 738-882 (1077)
4 COG5177 Uncharacterized conser 100.0 1.7E-43 3.6E-48 315.8 2.2 154 4-157 559-715 (769)
5 cd03706 mtEFTU_III Domain III 77.3 21 0.00046 24.7 8.2 70 30-113 21-92 (93)
6 PTZ00388 40S ribosomal protein 46.6 33 0.00071 28.5 4.1 74 42-115 106-186 (223)
7 cd03707 EFTU_III Domain III of 41.0 1.1E+02 0.0024 20.7 7.4 68 30-111 21-90 (90)
8 PRK04000 translation initiatio 40.4 2.4E+02 0.0053 24.9 9.0 64 30-111 346-410 (411)
9 cd03708 GTPBP_III Domain III o 38.9 1.2E+02 0.0026 20.3 7.6 68 30-113 16-86 (87)
10 TIGR03680 eif2g_arch translati 37.4 2.3E+02 0.005 24.9 8.3 64 30-111 341-405 (406)
11 KOG3861|consensus 37.3 35 0.00076 30.5 3.0 30 81-110 186-216 (438)
12 COG1866 PckA Phosphoenolpyruva 27.7 54 0.0012 30.6 2.7 95 11-119 149-250 (529)
13 cd02848 Chitinase_N_term Chiti 27.3 84 0.0018 23.4 3.2 36 12-48 8-43 (106)
14 PF14731 Staphopain_pro: Staph 20.8 40 0.00086 27.0 0.5 19 127-153 44-62 (169)
15 PF12308 Noelin-1: Neurogenesi 20.2 68 0.0015 23.7 1.6 13 71-83 17-29 (101)
No 1
>PF04950 DUF663: Protein of unknown function (DUF663); InterPro: IPR007034 This domain is found at the C terminus of the ribosome biogenesis protein BMS1 and TSR1 families, which may act as a molecular switch during maturation of the 40S ribosomal subunit in the nucleolus.; PDB: 1WB1_D 1WB3_B 1WB2_A.
Probab=100.00 E-value=3.5e-66 Score=439.41 Aligned_cols=153 Identities=42% Similarity=0.753 Sum_probs=47.6
Q ss_pred EEEee-cCCcceeEEEEEEEEeccccccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEEeec
Q psy17858 5 LRLVG-TTGNMNCFSFQARVKKHRWYGKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFWGPI 83 (157)
Q Consensus 5 ~~~~~-l~~E~k~sv~~~~vkr~~~~~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfygPi 83 (157)
|.+.| |+||+|+||+|++|+||+||++||||||||++||||||||++||||++++|+||||+||+|+|++|+||||||+
T Consensus 101 lil~gLl~~E~k~svv~~~ikrh~~~~~~lkSkd~li~~~G~Rrf~~~Pifs~~~~~~r~k~~k~~~~~~~~~at~ygPi 180 (297)
T PF04950_consen 101 LILGGLLPHEQKMSVVNFRIKRHRWYEKPLKSKDPLIFSCGWRRFQTIPIFSQEDNNNRHKYEKYLPEGMHCVATFYGPI 180 (297)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 45566 59999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceEEEEEeccCCCCCeEEEEEEEEecCCCCcEEEEEEEEEeeeEEEeeceEEEecCCCChhhhcccccCC
Q psy17858 84 TRSGTGFLAVQDVAKREPGFRVIATGTILDANQTAEVTKKLKLTGVPMKIYKKTAFIKDMFNSTLEVAKFEGLR 157 (157)
Q Consensus 84 ~~~~~~vl~f~~~~~~~~~~~l~atG~v~~~d~~riI~Kri~LtG~P~KI~K~ta~Vr~MF~n~~dV~~F~ga~ 157 (157)
+|||+|+|+|++.+++..+++|+|||+++++|++++|+||++|+|||+|||||+||||+||||++||+||+||+
T Consensus 181 ~~~~~~vl~f~~~~~~~~~~~l~atG~v~~~d~~~~i~Kki~L~G~P~ki~k~~a~vr~MF~~~~dv~~F~~~~ 254 (297)
T PF04950_consen 181 TFPPTPVLAFKESSNSGSSFRLVATGSVLNVDPDRIIVKKIKLTGYPFKIHKRTAVVRGMFFNPEDVAWFKGAE 254 (297)
T ss_dssp ---------------TTTSS-B-EEEEEEEE--GGGS-B--EEEEEEEEEESSSCEECSSSSTCCHHHHS-S--
T ss_pred ccccccccccccccccCCCceEEEeeeEeCCCCcchhheeeeecCchheEECceEEhhhhcCCHHHHHhhcCCE
Confidence 99999999999976566689999999999999999999999999999999999999999999999999999985
No 2
>KOG1980|consensus
Probab=100.00 E-value=2.8e-54 Score=390.72 Aligned_cols=152 Identities=27% Similarity=0.428 Sum_probs=145.7
Q ss_pred ceEEEee-cCCcceeEEEEEEEEeccccccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEEe
Q psy17858 3 KLLRLVG-TTGNMNCFSFQARVKKHRWYGKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFWG 81 (157)
Q Consensus 3 ~~~~~~~-l~~E~k~sv~~~~vkr~~~~~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfyg 81 (157)
.+|-++| ||||+||||+||.++||+.|+.||||+++|||+||+|||.++|+||+++.|++|||+||+++.++.+|||||
T Consensus 546 ~~lvvfglL~hEhKmtV~Nfvl~r~p~~e~Plkske~livq~G~Rrf~i~PlfSs~t~ndkhK~eRfl~~~~a~vaTvia 625 (754)
T KOG1980|consen 546 LLLVVFGLLPHEHKMTVLNFVLQRHPGYEEPLKSKEELIVQCGFRRFDINPLFSSHTPNDKHKYERFLPPDEAVVATVIA 625 (754)
T ss_pred cceeeeeccchhhhheeeEEEEecCCCCCccccccceeEEEeccceEEeccccccCCccchhhhhhhcCccceEEEEEEe
Confidence 4667788 599999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccCCceEEEEEeccCCCCCeEEEEEEEEecCCCCcEEEEEEEEEeeeEEEeeceEEEecCCCChhhhcccccC
Q psy17858 82 PITRSGTGFLAVQDVAKREPGFRVIATGTILDANQTAEVTKKLKLTGVPMKIYKKTAFIKDMFNSTLEVAKFEGL 156 (157)
Q Consensus 82 Pi~~~~~~vl~f~~~~~~~~~~~l~atG~v~~~d~~riI~Kri~LtG~P~KI~K~ta~Vr~MF~n~~dV~~F~ga 156 (157)
||+|+|+|||+|+.+++ ...+++|||+++++||||+|+||+||+|||||||||.|+|||||||+|||.||++-
T Consensus 626 PI~F~ps~vL~FK~s~~--~~~~LiAtG~~l~~dpdRiv~KRaVLsGhPfKi~kk~v~VRYMFFn~EDV~wFKpI 698 (754)
T KOG1980|consen 626 PITFGPSPVLIFKKSSD--GSLELIATGSLLNCDPDRIVAKRAVLSGHPFKIHKKYVVVRYMFFNREDVEWFKPI 698 (754)
T ss_pred ccccCCcceEEEEeCCC--cccceeeeeeeeccCCcceeEeeeeecCCCceeeeeeEEEeeecCCHhHeeeecce
Confidence 99999999999999853 47899999999999999999999999999999999999999999999999999974
No 3
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-46 Score=340.27 Aligned_cols=145 Identities=50% Similarity=0.884 Sum_probs=141.5
Q ss_pred cCCcceeEEEEEEEEeccccccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEEeecccCCce
Q psy17858 10 TTGNMNCFSFQARVKKHRWYGKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFWGPITRSGTG 89 (157)
Q Consensus 10 l~~E~k~sv~~~~vkr~~~~~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfygPi~~~~~~ 89 (157)
||.|.++++++.+++||+||+++||++||||||+||||||+.||||..|+..|.||+||+|+||||.+|||||+++||+|
T Consensus 738 Lp~E~~~giVq~rikrhrWhKKILKTNdPlifS~GWRRFQsiPvys~~DsrTRnRMlKYTPEhmhCn~sFYGP~v~pntg 817 (1077)
T COG5192 738 LPAEKEMGIVQGRIKRHRWHKKILKTNDPLIFSVGWRRFQSIPVYSMKDSRTRNRMLKYTPEHMHCNVSFYGPVVPPNTG 817 (1077)
T ss_pred cchhhhhhhhhhHHHHhHHHHHHhccCCCeEEEechhhhcccceeeecchhhhhhhhhcCccceeeeeeeecCccCCCCC
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeccCCCCCeEEEEEEEEecCCCCcEEEEEEEEEeeeEEEeeceEEEecCCCChhhhcccccCC
Q psy17858 90 FLAVQDVAKREPGFRVIATGTILDANQTAEVTKKLKLTGVPMKIYKKTAFIKDMFNSTLEVAKFEGLR 157 (157)
Q Consensus 90 vl~f~~~~~~~~~~~l~atG~v~~~d~~riI~Kri~LtG~P~KI~K~ta~Vr~MF~n~~dV~~F~ga~ 157 (157)
+.+.|+. .++||++|+|++.++|.+..++||++|+|||++|.++|||||+||.|..||.+|+||+
T Consensus 818 Fc~Vqse---~g~frv~a~g~i~dv~~~~~lvkklklvg~p~qi~qnt~fvrdmfts~lev~kfega~ 882 (1077)
T COG5192 818 FCAVQSE---KGDFRVLALGTITDVNGDAKLVKKLKLVGYPKQIVQNTVFVRDMFTSDLEVLKFEGAS 882 (1077)
T ss_pred ceeEEec---CCceEEEEeeeeEeccccHHHHhhhhhccCcHHHhhhhHhHHHhhhhhhHHHhhcccc
Confidence 9999984 5579999999999999999999999999999999999999999999999999999996
No 4
>COG5177 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.7e-43 Score=315.80 Aligned_cols=154 Identities=23% Similarity=0.303 Sum_probs=145.6
Q ss_pred eEEEeec-CCcceeEEEEEEEEeccccccccccCCeEEEEEeeeeEEeeeeeeecC--CCceeEEeeccCCCceEEEEEE
Q psy17858 4 LLRLVGT-TGNMNCFSFQARVKKHRWYGKILKSGNPVIMSVGWRRFQTLPIYSKQE--DNMRYRMLKYTPQHVACMAHFW 80 (157)
Q Consensus 4 ~~~~~~l-~~E~k~sv~~~~vkr~~~~~~~lkSkd~li~~~G~RRf~~~Pifs~~~--~~~r~K~~k~~~~~~~~~asfy 80 (157)
+|-++|| .||+|.+|.||.++||..|++||+|+++|++|+|.|||.++|+||+.. +|+-|||.||+++....+|||+
T Consensus 559 llvvygll~yE~k~tV~nFs~~rh~eye~P~~s~E~~vvq~G~rr~~i~Pl~s~~s~s~Nn~qKy~r~l~p~~~~vas~I 638 (769)
T COG5177 559 LLVVYGLLEYEDKKTVHNFSLQRHFEYEVPLKSEESMVVQLGHRRVDICPLISKGSNSPNNNQKYFRRLKPLESGVASFI 638 (769)
T ss_pred eeeeeehhhhcchhhhhhhhhhhhhcccCCCCcccceeeeeccceEEEeehhccCCCCCcchHHHHhhcCccceeeeEEE
Confidence 4557884 999999999999999999999999999999999999999999999954 3788999999999999999999
Q ss_pred eecccCCceEEEEEeccCCCCCeEEEEEEEEecCCCCcEEEEEEEEEeeeEEEeeceEEEecCCCChhhhcccccCC
Q psy17858 81 GPITRSGTGFLAVQDVAKREPGFRVIATGTILDANQTAEVTKKLKLTGVPMKIYKKTAFIKDMFNSTLEVAKFEGLR 157 (157)
Q Consensus 81 gPi~~~~~~vl~f~~~~~~~~~~~l~atG~v~~~d~~riI~Kri~LtG~P~KI~K~ta~Vr~MF~n~~dV~~F~ga~ 157 (157)
|||.|++.|+|+|+.+..+..+.+++|+|+.+++|.+|+|+||.+|||||||+||+.++|||||||||||.||++.|
T Consensus 639 ~Pi~Fg~spvi~fkkS~~d~~s~~l~a~g~~~n~d~~rviakrAvLtGhPFk~hK~~vtvryMFf~pEdV~wFk~Iq 715 (769)
T COG5177 639 GPISFGLSPVIIFKKSALDELSATLLASGGMNNFDGDRVIAKRAVLTGHPFKNHKRYVTVRYMFFSPEDVMWFKNIQ 715 (769)
T ss_pred cceeccCcceEEEccCccchhhhhhhhcccccccCcchhhhhhhhhcCCCcccceeEEEEeeecCCHhHeeeecchh
Confidence 99999999999999987666788999999999999999999999999999999999999999999999999999754
No 5
>cd03706 mtEFTU_III Domain III of mitochondrial EF-TU (mtEF-TU). mtEF-TU is highly conserved and is 55-60% identical to bacterial EF-TU. The overall structure is similar to that observed in the Escherichia coli and Thermus aquaticus EF-TU. However, compared with that observed in prokaryotic EF-TU the nucleotide-binding domain (domain I) of EF-TUmt is in a different orientation relative to the rest of the structure. Furthermore, domain III is followed by a short 11-amino acid extension that forms one helical turn. This extension seems to be specific to the mitochondrial factors and has not been observed in any of the prokaryotic factors.
Probab=77.31 E-value=21 Score=24.66 Aligned_cols=70 Identities=14% Similarity=-0.022 Sum_probs=47.0
Q ss_pred ccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEE--eecccCCceEEEEEeccCCCCCeEEEE
Q psy17858 30 GKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFW--GPITRSGTGFLAVQDVAKREPGFRVIA 107 (157)
Q Consensus 30 ~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfy--gPi~~~~~~vl~f~~~~~~~~~~~l~a 107 (157)
+.||++.....+++|-..-.++-..- ++ .+++.++..+.|.+. .|+...+..-++++..+ +.+|
T Consensus 21 ~~~i~~g~~~~~~~~t~~~~~~i~~~----~~----~~~l~~g~~~~v~i~l~~p~~~~~g~rf~lR~~~------~tvg 86 (93)
T cd03706 21 HKPFVSNFQPQMFSLTWDCAARIDLP----PG----KEMVMPGEDTKVTLILRRPMVLEKGQRFTLRDGN------RTIG 86 (93)
T ss_pred CccccCCCeeEEEeccceEEEEEECC----CC----CcEeCCCCEEEEEEEECCcEEEeeCCEEEEEECC------EEEE
Confidence 48999999999999886644322221 11 345778988888888 88754443444455541 7899
Q ss_pred EEEEec
Q psy17858 108 TGTILD 113 (157)
Q Consensus 108 tG~v~~ 113 (157)
.|.|++
T Consensus 87 ~G~V~~ 92 (93)
T cd03706 87 TGLVTD 92 (93)
T ss_pred EEEEEe
Confidence 998865
No 6
>PTZ00388 40S ribosomal protein S8-like; Provisional
Probab=46.58 E-value=33 Score=28.54 Aligned_cols=74 Identities=16% Similarity=0.240 Sum_probs=48.2
Q ss_pred EEeeeeEEeeeeeeecCCCc-eeEEeeccCCCc--eEEEEEEeecccC--CceEEEEEeccC--CCCCeEEEEEEEEecC
Q psy17858 42 SVGWRRFQTLPIYSKQEDNM-RYRMLKYTPQHV--ACMAHFWGPITRS--GTGFLAVQDVAK--REPGFRVIATGTILDA 114 (157)
Q Consensus 42 ~~G~RRf~~~Pifs~~~~~~-r~K~~k~~~~~~--~~~asfygPi~~~--~~~vl~f~~~~~--~~~~~~l~atG~v~~~ 114 (157)
.-+|.|..+.|.|--++..- --|||||..+-. .-.|.++-|-.=. ..+++....... .-....++--|+++++
T Consensus 106 ~k~WkRmvtk~tfvg~~ftrkppk~erfiRp~glr~~~AnVt~p~~~~t~~~kIi~V~kNPan~~Ytr~nvITKGTIIEt 185 (223)
T PTZ00388 106 KKSWKRLVNKVTFVGEDFTRKPPKYERFIRPTGLRFKKAHVTHPELKTTFYLDIIGVKKNPQSNLYTSLGVITKGTIIEV 185 (223)
T ss_pred ccchhheeccceecCCCcccCCcccccccccchhhcceeEEeccccCcEEEEEEEEEeeCCCChhhhhcCceeeeeEEEe
Confidence 45799999999998877533 359999999853 4446666664332 445665544321 1223457888999877
Q ss_pred C
Q psy17858 115 N 115 (157)
Q Consensus 115 d 115 (157)
|
T Consensus 186 n 186 (223)
T PTZ00388 186 N 186 (223)
T ss_pred e
Confidence 5
No 7
>cd03707 EFTU_III Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts). EF-Ts is the guanine-nucleotide-exchange factor for EF-Tu. EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Crystallographic studies revealed structural similarities ("molecular mimicry") between tertiary structures of EF-G and the EF-Tu-aminoacyl-tRNA ternary complex. Domains III, IV, and V of EF-G mimic the tRNA structure in the EF-Tu ternary complex; domains III, IV and V can be related to the acceptor stem, anticodon helix
Probab=41.01 E-value=1.1e+02 Score=20.65 Aligned_cols=68 Identities=12% Similarity=-0.023 Sum_probs=42.6
Q ss_pred ccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEE--eecccCCceEEEEEeccCCCCCeEEEE
Q psy17858 30 GKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFW--GPITRSGTGFLAVQDVAKREPGFRVIA 107 (157)
Q Consensus 30 ~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfy--gPi~~~~~~vl~f~~~~~~~~~~~l~a 107 (157)
+.||++..++.+++|-..-.+.-..-. -.+++.+|..+.|.+. .|+...+..=++++.. -+.+|
T Consensus 21 ~~~i~~g~~~~l~~gt~~~~~~i~~l~--------~~~~i~~g~~~~v~l~l~~pv~~~~~~rf~lR~~------~~tig 86 (90)
T cd03707 21 HTPFFSGYRPQFYIRTTDVTGSITLPE--------GTEMVMPGDNVKMTVELIHPIALEKGLRFAIREG------GRTVG 86 (90)
T ss_pred CCcccCCceeEEEeccCeEEEEEEccC--------cccccCCCCEEEEEEEECCcEEEecCCEEEEecC------CcEEE
Confidence 479999999999999887443222111 1345778888888887 7765333333444432 24677
Q ss_pred EEEE
Q psy17858 108 TGTI 111 (157)
Q Consensus 108 tG~v 111 (157)
.|.|
T Consensus 87 ~G~V 90 (90)
T cd03707 87 AGVI 90 (90)
T ss_pred EEEC
Confidence 7753
No 8
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=40.37 E-value=2.4e+02 Score=24.95 Aligned_cols=64 Identities=19% Similarity=0.314 Sum_probs=44.6
Q ss_pred ccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEEeecc-cCCceEEEEEeccCCCCCeEEEEE
Q psy17858 30 GKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFWGPIT-RSGTGFLAVQDVAKREPGFRVIAT 108 (157)
Q Consensus 30 ~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfygPi~-~~~~~vl~f~~~~~~~~~~~l~at 108 (157)
+.+|+...++.+++|-.+-.+.-..-. +..+-..++.|+. +++.+++..+.. ....|++|+
T Consensus 346 ~~~i~~g~~~~l~~~t~~~~~~i~~i~---------------~~~~~~~l~~p~~~~~g~r~~~~~~~---~~~~~~~~~ 407 (411)
T PRK04000 346 VEPIKTGEPLMLNVGTATTVGVVTSAR---------------KDEAEVKLKRPVCAEEGDRVAISRRV---GGRWRLIGY 407 (411)
T ss_pred CCCCCCCCEEEEEEeccEEEEEEEEcC---------------CcEEEEEECCcEecCCCCEEEEEEec---CCcEEEEEE
Confidence 578999999999999887766544321 1234455788854 457788776653 457899999
Q ss_pred EEE
Q psy17858 109 GTI 111 (157)
Q Consensus 109 G~v 111 (157)
|.+
T Consensus 408 ~~~ 410 (411)
T PRK04000 408 GII 410 (411)
T ss_pred EEe
Confidence 975
No 9
>cd03708 GTPBP_III Domain III of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=38.90 E-value=1.2e+02 Score=20.30 Aligned_cols=68 Identities=13% Similarity=0.161 Sum_probs=41.7
Q ss_pred ccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEE---eecccCCceEEEEEeccCCCCCeEEE
Q psy17858 30 GKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFW---GPITRSGTGFLAVQDVAKREPGFRVI 106 (157)
Q Consensus 30 ~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfy---gPi~~~~~~vl~f~~~~~~~~~~~l~ 106 (157)
+.||.+....++++|-.+-.+.-. .-+ . +++.++..+.+.+- .|+..-+.+-+++++ + +.+
T Consensus 16 ~~~i~~Gy~~~l~~~t~~~~~~i~--~i~--~-----~~l~~g~~~~v~i~f~~~p~~~e~~grf~lr~------g-~tv 79 (87)
T cd03708 16 PTTISPGYQATVHIGSIRQTARIV--SID--K-----DVLRTGDRALVRFRFLYHPEYLREGQRLIFRE------G-RTK 79 (87)
T ss_pred CCcccCCCEeEEEEcCCEEEEEEE--ecc--H-----hhccCCCeEEEEEEECCCCcEEccCCeEEEEC------C-CcE
Confidence 578999999989888877443211 111 1 56777877776665 566323233334433 2 588
Q ss_pred EEEEEec
Q psy17858 107 ATGTILD 113 (157)
Q Consensus 107 atG~v~~ 113 (157)
|.|.+.+
T Consensus 80 a~G~I~~ 86 (87)
T cd03708 80 GVGEVTK 86 (87)
T ss_pred EEEEEEE
Confidence 9998864
No 10
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=37.42 E-value=2.3e+02 Score=24.95 Aligned_cols=64 Identities=17% Similarity=0.261 Sum_probs=45.4
Q ss_pred ccccccCCeEEEEEeeeeEEeeeeeeecCCCceeEEeeccCCCceEEEEEEeecc-cCCceEEEEEeccCCCCCeEEEEE
Q psy17858 30 GKILKSGNPVIMSVGWRRFQTLPIYSKQEDNMRYRMLKYTPQHVACMAHFWGPIT-RSGTGFLAVQDVAKREPGFRVIAT 108 (157)
Q Consensus 30 ~~~lkSkd~li~~~G~RRf~~~Pifs~~~~~~r~K~~k~~~~~~~~~asfygPi~-~~~~~vl~f~~~~~~~~~~~l~at 108 (157)
+.||+....+.+++|-.+-.+.-..-.+ + .+-..+..|+. ..+..++..+.. ...+|++|+
T Consensus 341 ~~~i~~g~~~~l~~gt~~~~~~v~~~~~---~------------~~~l~l~~p~~~~~g~r~~~~~~~---~~~~~~~g~ 402 (406)
T TIGR03680 341 VEPIKTGEVLMLNVGTATTVGVVTSARK---D------------EIEVKLKRPVCAEEGDRVAISRRV---GGRWRLIGY 402 (406)
T ss_pred cccCCCCCEEEEEEccceEEEEEEEcCC---c------------EEEEEECCcEEcCCCCEEEEEEec---CCceEEEEE
Confidence 4799999999999998877665554221 1 13344677754 447788888765 357999999
Q ss_pred EEE
Q psy17858 109 GTI 111 (157)
Q Consensus 109 G~v 111 (157)
|.+
T Consensus 403 g~~ 405 (406)
T TIGR03680 403 GII 405 (406)
T ss_pred EEe
Confidence 986
No 11
>KOG3861|consensus
Probab=37.34 E-value=35 Score=30.51 Aligned_cols=30 Identities=13% Similarity=0.213 Sum_probs=20.8
Q ss_pred eecccC-CceEEEEEeccCCCCCeEEEEEEE
Q psy17858 81 GPITRS-GTGFLAVQDVAKREPGFRVIATGT 110 (157)
Q Consensus 81 gPi~~~-~~~vl~f~~~~~~~~~~~l~atG~ 110 (157)
||++|| +.|+++|-...|.++..-++|+|+
T Consensus 186 Gsv~fP~nRP~~af~~~kN~gGki~vvGS~~ 216 (438)
T KOG3861|consen 186 GSVVFPFNRPLVAFFTNKNKGGKILVVGSGY 216 (438)
T ss_pred CceeccCCCcceeeeeccCcCceEEEeeeee
Confidence 888888 789999987766665444444443
No 12
>COG1866 PckA Phosphoenolpyruvate carboxykinase (ATP) [Energy production and conversion]
Probab=27.67 E-value=54 Score=30.55 Aligned_cols=95 Identities=19% Similarity=0.127 Sum_probs=55.8
Q ss_pred CCcceeEEEEEEEEeccccccccccCCeEEEEEeeeeEEeeee-eeecCCCceeEEeeccCC-----CceEEEEEEeecc
Q psy17858 11 TGNMNCFSFQARVKKHRWYGKILKSGNPVIMSVGWRRFQTLPI-YSKQEDNMRYRMLKYTPQ-----HVACMAHFWGPIT 84 (157)
Q Consensus 11 ~~E~k~sv~~~~vkr~~~~~~~lkSkd~li~~~G~RRf~~~Pi-fs~~~~~~r~K~~k~~~~-----~~~~~asfygPi~ 84 (157)
..+..++|++.---+--|-..=+.|+.-+++..-=|---+.-. |.-+-.-+...++-|+-+ .|||.|.. ||.
T Consensus 149 ~~~~dftvin~p~f~~~~~~~g~~Se~~i~~n~~~~~~lIggT~YaGEMKK~~fs~mnylLP~~~i~~MHcsANv-G~~- 226 (529)
T COG1866 149 TFKPDFTVINAPSFKADPKRDGLRSETFVAFNFTERIVLIGGTWYAGEMKKGIFSVMNYLLPLKGILSMHCSANV-GEK- 226 (529)
T ss_pred cCCCCeEEEeCCcCCCChhhcccccccEEEEecccceeeeeccchhhhhhhhHHHHhhccccccccccceecccc-CcC-
Confidence 3456788888666666676677777666665532221112212 221212355677788776 37787665 554
Q ss_pred cCCceEEEEEeccCCCCCeEEEEEEEE-ecCCCCcE
Q psy17858 85 RSGTGFLAVQDVAKREPGFRVIATGTI-LDANQTAE 119 (157)
Q Consensus 85 ~~~~~vl~f~~~~~~~~~~~l~atG~v-~~~d~~ri 119 (157)
+-..|+| -|.|||.. ++.||.|.
T Consensus 227 --gdvalFF----------GLSGTGKTTLSaDp~R~ 250 (529)
T COG1866 227 --GDVALFF----------GLSGTGKTTLSADPHRR 250 (529)
T ss_pred --CCeEEEE----------eccCCCcceeccCCccc
Confidence 4455555 46677754 79999984
No 13
>cd02848 Chitinase_N_term Chitinase N-terminus domain. Chitinases hydrolyze the abundant natural biopolymer chitin, producing smaller chito-oligosaccharides. Chitin consists of multiple N-acetyl-D-glucosamine (NAG) residues connected via beta-1,4-glycosidic linkages and is an important structural element of fungal cell wall and arthropod exoskeletons. On the basis of the mode of chitin hydrolysis, chitinases are classified as random, endo-, and exo-chitinases and based on sequence criteria, chitinases belong to families 18 and 19 of glycosyl hydrolases. The N-terminus of chitinase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitob
Probab=27.33 E-value=84 Score=23.36 Aligned_cols=36 Identities=17% Similarity=0.316 Sum_probs=31.8
Q ss_pred CcceeEEEEEEEEeccccccccccCCeEEEEEeeeeE
Q psy17858 12 GNMNCFSFQARVKKHRWYGKILKSGNPVIMSVGWRRF 48 (157)
Q Consensus 12 ~E~k~sv~~~~vkr~~~~~~~lkSkd~li~~~G~RRf 48 (157)
.|++.+++++.-.- .-|++.+|.+|..-+++-|-.+
T Consensus 8 ~~~~ys~Vevn~~a-t~Y~~lVk~~d~v~V~V~wnvW 43 (106)
T cd02848 8 GETQFSIVEVDQAA-TAYKQLVKVKDAADVSVKWNAW 43 (106)
T ss_pred ccceeEEEEEccch-hhhhheEEeccceEEEEEEeee
Confidence 57889998887766 7899999999999999999877
No 14
>PF14731 Staphopain_pro: Staphopain proregion; PDB: 1X9Y_D.
Probab=20.79 E-value=40 Score=26.95 Aligned_cols=19 Identities=42% Similarity=0.735 Sum_probs=8.5
Q ss_pred EeeeEEEeeceEEEecCCCChhhhccc
Q psy17858 127 TGVPMKIYKKTAFIKDMFNSTLEVAKF 153 (157)
Q Consensus 127 tG~P~KI~K~ta~Vr~MF~n~~dV~~F 153 (157)
-|.||||+| |++.+|=.+|
T Consensus 44 LGepFKIyk--------fn~~~DgnyY 62 (169)
T PF14731_consen 44 LGEPFKIYK--------FNGESDGNYY 62 (169)
T ss_dssp E---B--EE--------TTS-B-SSEE
T ss_pred cCCcEEEee--------ccCccCCcEE
Confidence 499999988 7777776655
No 15
>PF12308 Noelin-1: Neurogenesis glycoprotein; InterPro: IPR022082 This domain family is found in eukaryotes, and is approximately 100 amino acids in length. The family is found in association with PF02191 from PFAM. There are two conserved sequence motifs: SAQ and VQN. Noelin-1 is a glycoprotein which is secreted mainly by postmitotic neurogenic tissues in the developing central and peripheral nervous systems, first appearing after neural tube closure. It is likely that it forms large multimeric complexes.It has a divergent function in neurogenesis. In animal caps neuralized by expression of noggin, co-expression of Noelin-1 causes expression of neuronal differentiation markers several stages before neurogenesis normally occurs in this tissue. Finally, only secreted forms of the protein can activate sensory marker expression, while all forms of the protein can induce early neurogenesis.
Probab=20.21 E-value=68 Score=23.68 Aligned_cols=13 Identities=15% Similarity=0.342 Sum_probs=10.6
Q ss_pred CCceEEEEEEeec
Q psy17858 71 QHVACMAHFWGPI 83 (157)
Q Consensus 71 ~~~~~~asfygPi 83 (157)
++..||+|+++|.
T Consensus 17 ~dGrCvCTVvaP~ 29 (101)
T PF12308_consen 17 PDGRCVCTVVAPQ 29 (101)
T ss_pred CCCCEEEEEecCC
Confidence 3568999999984
Done!