Query 024389
Match_columns 268
No_of_seqs 107 out of 219
Neff 5.3
Searched_HMMs 29240
Date Mon Mar 25 07:24:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024389.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024389hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2y39_A Nickel and cobalt resis 97.2 0.0063 2.2E-07 49.2 12.1 91 142-248 20-113 (118)
2 3itf_A Periplasmic adaptor pro 95.5 0.11 3.7E-06 43.1 10.3 93 142-251 45-138 (145)
3 3o39_A Periplasmic protein rel 93.6 0.12 4.3E-06 40.8 5.9 84 142-242 17-101 (108)
4 3oeo_A Spheroplast protein Y; 93.5 0.032 1.1E-06 45.7 2.3 94 142-251 33-126 (138)
5 3lay_A Zinc resistance-associa 87.9 4.2 0.00014 34.5 10.2 40 142-181 67-106 (175)
6 1yvl_A Signal transducer and a 49.2 2E+02 0.0069 29.2 12.7 85 149-241 144-230 (683)
7 3v22_V Ribosome modulation fac 28.6 6.6 0.00022 28.0 -1.4 16 90-105 34-49 (61)
8 2jrm_A Ribosome modulation fac 27.1 7.3 0.00025 28.1 -1.4 11 94-104 38-48 (65)
9 2zzd_B Thiocyanate hydrolase s 24.1 99 0.0034 25.7 4.8 38 21-64 107-144 (157)
10 3t98_B Nucleoporin NUP58/NUP45 23.3 1.4E+02 0.0048 22.5 5.2 53 7-62 8-60 (93)
11 3l9k_W Dynein intermediate cha 22.2 1E+02 0.0035 19.8 3.6 16 153-168 18-33 (38)
No 1
>2y39_A Nickel and cobalt resistance protein CNRR; metal binding protein; 1.41A {Cupriavidus metallidurans} PDB: 2y3b_A 2y3d_A 2y3g_A* 2y3h_A 3epv_A*
Probab=97.19 E-value=0.0063 Score=49.18 Aligned_cols=91 Identities=15% Similarity=0.131 Sum_probs=68.7
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRLR 221 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~LR 221 (268)
+||++|-..|+.|+..-.....+|..+|...-..+++.+..+ . +.++.|.+++...-. ..-.|+
T Consensus 20 ~Lt~~Q~~~leaie~~fa~~r~~le~emRaan~~La~ai~~~------~---~~~p~V~aaid~~h~-------~mG~LQ 83 (118)
T 2y39_A 20 PLDANEREILELKEDAFAQRRREIETRLRAANGKLADAIAKN------P---AWSPEVEAATQEVER-------AAGDLQ 83 (118)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC------C---SCCHHHHHHHHHHHH-------HHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc------c---ccCHHHHHHHHHHHH-------HHHHHH
Confidence 699999999999999999999999999999999999887532 1 122445455533322 444589
Q ss_pred HHHH---HHHHhhcCHHHHHHHHHHHHHHH
Q 024389 222 KSVI---AEIVGALSVYQAALFLEGLAQFL 248 (268)
Q Consensus 222 ~~TL---~~v~~iLTp~QAA~fL~A~~e~~ 248 (268)
..|| -+|..||||-|+..|=-.+.+-+
T Consensus 84 keTi~HvfeMR~VLtPeQ~~~fd~~vv~al 113 (118)
T 2y39_A 84 RATLVHVFEMRAGLKPEHRPAYDRVLIDAL 113 (118)
T ss_dssp HHHHHHHHHHHHHSCGGGHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 9994 45668999999999976665543
No 2
>3itf_A Periplasmic adaptor protein CPXP; CPXR, CPXA, cpxrap, CPX-pathway, envelope stress, transduction; HET: MSE; 1.45A {Escherichia coli str} PDB: 3qzc_A
Probab=95.52 E-value=0.11 Score=43.13 Aligned_cols=93 Identities=13% Similarity=0.112 Sum_probs=61.0
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIG-RIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRL 220 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~-~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~L 220 (268)
+||++|..+|..|....+.+.+.+.. .... +-..+. . ++.. ++++...++.+...-.+.--.
T Consensus 45 ~LTdeQkqqir~L~~~~r~~~~~~~~~~r~~----l~~Li~-----a---d~fD-----eaa~ral~~~~~~~~~e~~v~ 107 (145)
T 3itf_A 45 SLTEHQRQQMRDLMQQARHEQPPVNVSELET----MHRLVT-----A---ENFD-----ENAVRAQAEKMANEQIARQVE 107 (145)
T ss_dssp CCCHHHHHHHHHHHHHHHHHSCCCCHHHHHH----HHHHHT-----C---SSCC-----HHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHhhhccHHHHHH----HHHHHc-----c---CCCC-----HHHHHHHHHHHHHHHHHHHHH
Confidence 49999999999999888876544321 1121 111111 1 1111 145556666666666777778
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHHHHHhh
Q 024389 221 RKSVIAEIVGALSVYQAALFLEGLAQFLVGL 251 (268)
Q Consensus 221 R~~TL~~v~~iLTp~QAA~fL~A~~e~~~~l 251 (268)
|.++-.+|..||||-|-+.|-.-..+-...+
T Consensus 108 r~k~~~qiy~vLTPEQk~ql~e~~~~r~~~~ 138 (145)
T 3itf_A 108 MAKVRNQMYRLLTPEQQAVLNEKHQQRMEQL 138 (145)
T ss_dssp HHHHHHHHHTTSCHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhhCCHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999877555444333
No 3
>3o39_A Periplasmic protein related to spheroblast format; alpha-helical, structural genomics, montreal-kingston bacter structural genomics initiative; HET: MSE; 2.60A {Escherichia coli}
Probab=93.64 E-value=0.12 Score=40.78 Aligned_cols=84 Identities=15% Similarity=0.054 Sum_probs=50.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHH-HHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALI-GRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRL 220 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs-~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~L 220 (268)
+||++|...|-.|....+..-+... .+...+ -+.+.+ ++-. ++++...++.+...-.+.---
T Consensus 17 ~LTd~Qk~qir~L~~~~r~~~~~~~~~~r~~m----~~Li~a--------d~FD-----Eaaar~l~~~~~~~~~e~~v~ 79 (108)
T 3o39_A 17 NLTDAQKQQIREIMKGQRDQMKRPPLEERRAM----HDIIAS--------DTFD-----KAKAEAQIAKMEEQRKANMLA 79 (108)
T ss_dssp CCCHHHHHHHHHHHHTTTTSCCCCCHHHHHHH----HHHHSS--------SSCC-----HHHHHHHHHHTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHhcccccHHHHHHH----HHHhcc--------CCCC-----HHHHHHHHHHHHHHHHHHHHH
Confidence 4999999999999988776643322 111111 111111 1111 133444444444444444457
Q ss_pred HHHHHHHHHhhcCHHHHHHHHH
Q 024389 221 RKSVIAEIVGALSVYQAALFLE 242 (268)
Q Consensus 221 R~~TL~~v~~iLTp~QAA~fL~ 242 (268)
|.++=.+|..||||-|-+.|-.
T Consensus 80 ~~r~~~qmy~lLTPEQk~q~~~ 101 (108)
T 3o39_A 80 HMETQNKIYNILTPEQKKQFNA 101 (108)
T ss_dssp HHHHHHHHHTTSCHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHH
Confidence 7888899999999999998743
No 4
>3oeo_A Spheroplast protein Y; LTXXQ, extracytoplasmic stress response-related, signaling P; 2.70A {Escherichia coli}
Probab=93.50 E-value=0.032 Score=45.74 Aligned_cols=94 Identities=14% Similarity=0.040 Sum_probs=55.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIGRIKKVQSGFVGRIAEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRLR 221 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~LR 221 (268)
+||++|..+|..|....+..-... +....+.+.+.+.+ ++.. ++++...++.+...-.+.--.|
T Consensus 33 ~LT~eQ~~qir~i~~~~r~~~~~~---~~~~r~~l~~Li~a--------~~fD-----eaav~al~~~~~~~~~e~~~~~ 96 (138)
T 3oeo_A 33 NLTDAQKQQIREIMKGQRDQMKRP---PLEERRAMHDIITS--------DTFD-----KVKAEAQIAKMEEQRKANMLAH 96 (138)
T ss_dssp CCCTTHHHHHHHHHHHHSSSSCCC---CTTHHHHHHHHHTC--------SSCC-----HHHHHHHHGGGSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhcc--------CCCC-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 499999999999988876643211 11111222221111 1110 1344455556666666666788
Q ss_pred HHHHHHHHhhcCHHHHHHHHHHHHHHHHhh
Q 024389 222 KSVIAEIVGALSVYQAALFLEGLAQFLVGL 251 (268)
Q Consensus 222 ~~TL~~v~~iLTp~QAA~fL~A~~e~~~~l 251 (268)
.++..+|..||||-|-+.|-.-..+-...+
T Consensus 97 ~~~~~~~~~vLTPEQr~q~~~~~~kr~~~~ 126 (138)
T 3oeo_A 97 METQNKIYNILTPEQKKQFNANFEKRLTER 126 (138)
T ss_dssp HHHHHHHHTTSCHHHHHHHHHHTC------
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999877655544333
No 5
>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}
Probab=87.92 E-value=4.2 Score=34.53 Aligned_cols=40 Identities=8% Similarity=0.034 Sum_probs=34.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhh
Q 024389 142 NVCKNLMSQIEQIECGLRLMVPALIGRIKKVQSGFVGRIA 181 (268)
Q Consensus 142 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~ 181 (268)
+||++|..++..|.++.+..-.+|.+.|...++.+...+.
T Consensus 67 nLT~EQq~ql~~I~~e~r~~~~~Lr~ql~akr~EL~aL~~ 106 (175)
T 3lay_A 67 PLTTEQQATAQKIYDDYYTQTSALRQQLISKRYEYNALLT 106 (175)
T ss_dssp -CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5999999999999999999999999998888888776554
No 6
>1yvl_A Signal transducer and activator of transcription 1-alpha/beta; signaling protein; HET: PTR; 3.00A {Homo sapiens}
Probab=49.21 E-value=2e+02 Score=29.18 Aligned_cols=85 Identities=13% Similarity=0.166 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhh--hhhhhhhhhcCchHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024389 149 SQIEQIECGLRLMVPALIGRIKKVQSGFVGRI--AEDWVAFERQSDEELKGVIGEAMKEEMDDMVSVFVDANRLRKSVIA 226 (268)
Q Consensus 149 ~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~--~~~~~~~~~~g~~~~~~~~~~a~~~kl~~L~~~l~qAD~LR~~TL~ 226 (268)
.++.+|+..++..|..+ +.|+.+|+.+.=.- ... ......|.. ...+..+...|...+..=|..|.+.+.
T Consensus 144 ~~v~~lr~~~q~~e~~i-k~Le~~Qe~f~~~y~~~~~-~~~~~~~~~------~~~~~~~~~~lq~~~~~l~~~R~~~~~ 215 (683)
T 1yvl_A 144 SKVRNVKDKVMCIEHEI-KSLEDLQDEYDFKCKTLQN-REHETNGVA------KSDQKQEQLLLKKMYLMLDNKRKEVVH 215 (683)
T ss_dssp HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHTT-CC------C------HHHHGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHh-hhhhhcccc------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777888888888766 46788888665211 000 000000110 022223334466666666777777776
Q ss_pred HHHhhcCHHHHHHHH
Q 024389 227 EIVGALSVYQAALFL 241 (268)
Q Consensus 227 ~v~~iLTp~QAA~fL 241 (268)
++.+++.......-.
T Consensus 216 k~~~~l~~~~~lq~~ 230 (683)
T 1yvl_A 216 KIIELLNVTELTQNA 230 (683)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 666655555444443
No 7
>3v22_V Ribosome modulation factor; stress response, small subunit H movement, stationary phase, ribosome hibernation; 3.00A {Escherichia coli} PDB: 3v24_V
Probab=28.57 E-value=6.6 Score=28.04 Aligned_cols=16 Identities=19% Similarity=0.212 Sum_probs=11.3
Q ss_pred hhhHHHhhcCCCchhH
Q 024389 90 LEVPFLFLGDLHPYLF 105 (268)
Q Consensus 90 lEr~fLWiGG~RPS~l 105 (268)
.+-.-.|+||||=-.-
T Consensus 34 ~~~r~~Wl~GWReg~~ 49 (61)
T 3v22_V 34 LNQRSQWLGGWREAMA 49 (61)
T ss_dssp SHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHhh
Confidence 3445789999986543
No 8
>2jrm_A Ribosome modulation factor; solution structure, structural genomics, PSI-2, protein initiative, northeast structural genomics consortium; NMR {Vibrio parahaemolyticus}
Probab=27.13 E-value=7.3 Score=28.15 Aligned_cols=11 Identities=18% Similarity=0.193 Sum_probs=8.7
Q ss_pred HHhhcCCCchh
Q 024389 94 FLFLGDLHPYL 104 (268)
Q Consensus 94 fLWiGG~RPS~ 104 (268)
=.|+||||=-.
T Consensus 38 ~~Wl~GWRegr 48 (65)
T 2jrm_A 38 SYWLGGWRDAR 48 (65)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 38999999653
No 9
>2zzd_B Thiocyanate hydrolase subunit beta; scnase, cobalt, metalloprotein, sulfenic acid, sulfinic acid, nitrIle hydratase, carbonyl sulfide; HET: FRU TLA BGC; 1.78A {Thiobacillus thioparus} PDB: 2dd4_B 2dxb_B 2dd5_B* 2dxc_B*
Probab=24.13 E-value=99 Score=25.68 Aligned_cols=38 Identities=21% Similarity=0.290 Sum_probs=29.2
Q ss_pred HHHHHHHHHhhhchhhHHhccccCCCChhhHHHHHHHHHHhHHH
Q 024389 21 DYYTNWFNTLQKTLLPLIHKSLSSSSSQTLLYSHVDLLLHHFLS 64 (268)
Q Consensus 21 ~~Y~~W~~eq~~~l~eLr~a~~~~~~sd~~L~~LV~~~l~Hy~~ 64 (268)
.||++|+....+.+.+- .-.+..||..-++.+...+..
T Consensus 107 sYYe~WL~ALe~lLvek------Gvit~~EL~ar~aEv~ar~~~ 144 (157)
T 2zzd_B 107 PYYGRWLLTAARILVDK------QFVTLTELHNKIVEMRERVAS 144 (157)
T ss_dssp CHHHHHHHHHHHHHHHT------TSSCHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHc------CCCCHHHHHHHHHHHHHhhhc
Confidence 69999999988887762 226788898888888776653
No 10
>3t98_B Nucleoporin NUP58/NUP45; NUP62 complex, nuclear import, coiled-coil, HE hairpin, FG-repeat, NPC, nuclear tranport, TRA channel, karyopherin; 2.50A {Rattus norvegicus} PDB: 2osz_A
Probab=23.32 E-value=1.4e+02 Score=22.51 Aligned_cols=53 Identities=15% Similarity=0.120 Sum_probs=32.2
Q ss_pred hhhcccchhhHHHHHHHHHHHHHhhhchhhHHhccccCCCChhhHHHHHHHHHHhH
Q 024389 7 SLFSRKKSQTLAFKDYYTNWFNTLQKTLLPLIHKSLSSSSSQTLLYSHVDLLLHHF 62 (268)
Q Consensus 7 ~~~~~~~~~~~~F~~~Y~~W~~eq~~~l~eLr~a~~~~~~sd~~L~~LV~~~l~Hy 62 (268)
.+|.++-..-+.--..|..||++.++.+.-+-. .+..++.+|...+.+...-|
T Consensus 8 ~yF~~lv~~fe~rL~~Yr~~IeelE~~L~s~s~---~~~~Tpq~L~~~l~~~h~~F 60 (93)
T 3t98_B 8 DYFRVLVQQFEVQLQQYRQQIEELENHLATQAN---NSHITPQDLSMAMQKIYQTF 60 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHH---HTTSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---CCCCCHHHHHHHHHHHHHHH
Confidence 467776554444457899999999998877632 12255555554444444333
No 11
>3l9k_W Dynein intermediate chain, cytosolic; LC7, light chain 7, KM23, RO hydrolase, alternative splicing, lysosome, membrane; 3.00A {Drosophila melanogaster}
Probab=22.24 E-value=1e+02 Score=19.76 Aligned_cols=16 Identities=19% Similarity=0.061 Sum_probs=13.3
Q ss_pred HHHHHHHHhHHHHHHH
Q 024389 153 QIECGLRLMVPALIGR 168 (268)
Q Consensus 153 ~Lq~~t~~~E~aLs~~ 168 (268)
=+.++++..|+||++.
T Consensus 18 F~~rsskviERAL~e~ 33 (38)
T 3l9k_W 18 FVVRAGRVIERALSEN 33 (38)
T ss_dssp HHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHccc
Confidence 4788999999999864
Done!