Query 024165
Match_columns 271
No_of_seqs 146 out of 694
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 03:30:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024165.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024165hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2cxh_A Probable BRIX-domain ri 100.0 5.4E-31 1.8E-35 231.9 18.5 131 40-172 32-167 (217)
2 1w94_A MIL, probable BRIX-doma 99.8 8.7E-20 3E-24 153.1 12.9 129 43-186 1-129 (156)
3 2l9d_A Uncharacterized protein 25.1 16 0.00056 28.0 0.2 18 21-39 18-35 (108)
4 4a74_A DNA repair and recombin 12.1 2.9E+02 0.0098 21.8 5.0 35 90-124 189-225 (231)
5 1h4v_B Histidyl-tRNA synthetas 8.7 6.4E+02 0.022 22.5 6.5 77 42-120 329-406 (421)
6 4e7p_A Response regulator; DNA 8.7 5.7E+02 0.02 18.3 7.1 70 28-97 52-122 (150)
7 3hdg_A Uncharacterized protein 8.7 4.2E+02 0.015 18.5 4.4 69 28-96 37-106 (137)
8 1n0w_A DNA repair protein RAD5 8.5 3.5E+02 0.012 21.5 4.3 37 88-124 196-234 (243)
9 4g84_A Histidine--tRNA ligase, 8.2 3E+02 0.01 25.1 4.1 84 42-125 367-451 (464)
10 2kxe_A DNA polymerase II small 8.1 1.2E+02 0.0043 21.1 1.0 34 58-91 6-48 (75)
No 1
>2cxh_A Probable BRIX-domain ribosomal biogenesis protein; 18S rRNA, IMP4, U3 snoRNP, ribosomal biogenesis binding, structural genomics, NPPSFA; 1.80A {Aeropyrum pernix} SCOP: c.51.1.2
Probab=99.97 E-value=5.4e-31 Score=231.93 Aligned_cols=131 Identities=15% Similarity=0.162 Sum_probs=125.4
Q ss_pred CCCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCC---
Q 024165 40 HFLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDG--- 116 (271)
Q Consensus 40 ~~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~G--- 116 (271)
..||+||||||+||+++++|++||+.+|||+.+.+|++.++++|++.|..++|+++++++|++++|++|||+|+|+|
T Consensus 32 ~~pKvLITTSr~pS~r~r~fakeL~~~lPns~~i~Rgk~sLkeL~e~a~~~~~tdlivV~e~rg~p~~L~~~hlP~G~~~ 111 (217)
T 2cxh_A 32 GGYRILVTTSRRPSPRIRSFVKDLSATIPGAFRFTRGHYSMEELAREAIIRGADRIVVVGERRGNPGIIRVYAVEGPERP 111 (217)
T ss_dssp -CCEEEEEESSSCCHHHHHHHHHHHTTSTTEEECCCTTCCHHHHHHHHHHTTEEEEEEEEEETTEEEEEEEEECCSSSCC
T ss_pred CCCeEEEEcCCCCCHHHHHHHHHHHHHCCCCEEeecCCcCHHHHHHHHHhCCCCEEEEEEecCCCCcEEEEEECCCCCCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred c-eEEEEEeceeehhhhccCCCC-CCCCceEEccCCCCchhHHHHHHhhhhCCCCCCC
Q 024165 117 P-TAHFKLSKLVLRKDIKNHGNP-TGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEF 172 (271)
Q Consensus 117 P-T~~F~I~n~~l~kdi~~~~~~-~~~~P~LI~nnF~t~~g~~i~~~l~~lFp~~p~~ 172 (271)
| |++|+|.|+++++|++.++++ ..++|+|+ +||+++++++++++|++|||. |..
T Consensus 112 P~Ta~F~I~nv~l~~ei~~~g~~~~~~rP~L~-~nF~t~~g~~i~~~f~~lFp~-P~~ 167 (217)
T 2cxh_A 112 DNIVSFIVKGVSLSRERRWGLPSLRGGEVLVA-RPLDSGVAVEFADAFVIAFHA-RLK 167 (217)
T ss_dssp EEEEEEEEEEEECHHHHTCCCCCCCSCCEEEE-EESSSSTHHHHHHHHHHHHCC-BSS
T ss_pred CcEEEEEEeeEEehhhhccCCCccCCCCceEE-eeecCchHHHHHHHHHHHcCC-CCC
Confidence 9 999999999999999999977 47899999 999999999999999999998 654
No 2
>1w94_A MIL, probable BRIX-domain ribosomal biogenesis protein; archaeal IMP4-BRIX domain, IMP4 domain; 2.0A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.51.1.2
Probab=99.82 E-value=8.7e-20 Score=153.09 Aligned_cols=129 Identities=14% Similarity=0.168 Sum_probs=105.4
Q ss_pred eEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEEEE
Q 024165 43 YCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFK 122 (271)
Q Consensus 43 kilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~F~ 122 (271)
|++||||++||+++++|+++|..++ |+.+.+|++.+++++++.|... +++++|++|+|+.|.++|+|.|||++|+
T Consensus 1 kilITTSr~Ps~~l~~fakeLa~~l-n~~~v~Rgk~sl~~L~~~~~~~----~iVV~e~rg~P~~l~i~hlp~gpt~~f~ 75 (156)
T 1w94_A 1 HMLLTTSRKPSQRTRSFSQRLSRIM-GWRYINRGKMSLRDVLIEARGP----VAVVSERHGNPARITFLDERGGERGYIL 75 (156)
T ss_dssp CCEEEECSSCCHHHHHHHHHHHHHH-TCEECCCTTCCHHHHHHHHSSC----EEEEEEETTEEEEEEEECTTSCEEEEEE
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHh-CCEEEeeCCcCHHHHHHhcCCC----EEEEEcCCCCCCeEEEEeCCCCCEEEEE
Confidence 5799999999999999999999999 9999999999999999998543 9999999999999999999999999999
Q ss_pred EeceeehhhhccCCCCCCCCceEEccCCCCchhHHHHHHhhhhCCCCCCCCCCeEEEEEecCCe
Q 024165 123 LSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDF 186 (271)
Q Consensus 123 I~n~~l~kdi~~~~~~~~~~P~LI~nnF~t~~g~~i~~~l~~lFp~~p~~~~rRVv~F~~~~d~ 186 (271)
+ |+.+.+|++... |..|...++++.+..+.++|. ||. .+...++|+.+..+++.
T Consensus 76 ~-nv~l~~~~~~~~------~~~v~~~~~~~~~~~l~~~~~--~~~-~~~~~~~~~~i~~~~~~ 129 (156)
T 1w94_A 76 F-NPSFEMKKPELA------DKAVRVSSCPPGSEGLCNLMG--LEV-DESSSRDAWSIRTDEEY 129 (156)
T ss_dssp E-EEEECSSCCCCS------SCCCEESCCCTTCHHHHHHHT--CEE-CCSCCTTEEEEECCSSS
T ss_pred E-ceEEcccCcccC------CceEEEecCChhHHHHHHHHC--CCc-cCCCCceEEEEEeCCCc
Confidence 8 999999987321 333444456777766677666 344 22345678888744443
No 3
>2l9d_A Uncharacterized protein; PG9854E, structural genomics, PSI-biology, protein structure initiative, unknown function; NMR {Methylobacillus flagellatus}
Probab=25.12 E-value=16 Score=28.00 Aligned_cols=18 Identities=22% Similarity=0.305 Sum_probs=12.7
Q ss_pred hhcceeeeecccchhhccC
Q 024165 21 LFKNIAVIRQSTWAWDNLW 39 (271)
Q Consensus 21 ~~~~~~~~~~~~~~~~~l~ 39 (271)
+-+.=++||||||++ .|.
T Consensus 18 iT~~Gk~FRPSDWAE-RL~ 35 (108)
T 2l9d_A 18 LTRAGKPFRPSDWVD-RMC 35 (108)
T ss_dssp EETTSCBCSCTTHHH-HHH
T ss_pred ecCCCCCcCCchHHH-HHh
Confidence 334446799999998 444
No 4
>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*
Probab=12.15 E-value=2.9e+02 Score=21.78 Aligned_cols=35 Identities=17% Similarity=0.250 Sum_probs=16.9
Q ss_pred CCCcEEEEEEecCCCCCeEEEEecCCCce--EEEEEe
Q 024165 90 KDFTSIIVVHTNRREPDALLIIGLPDGPT--AHFKLS 124 (271)
Q Consensus 90 ~~~t~lIi~~e~k~~p~~L~I~~lP~GPT--~~F~I~ 124 (271)
..++.++++...+.....+++.+.+.||+ +.|.|.
T Consensus 189 ~~~d~~l~l~~~~~~~r~l~~~K~r~~~~~~~~f~i~ 225 (231)
T 4a74_A 189 HSATLRVYLRKGKGGKRIARLIDAPHLPEGEAVFSIT 225 (231)
T ss_dssp -CCSEEEEEEECTTSCEEEEEESCC--CCSCEEEEEE
T ss_pred hhceEEEEEEecCCCeEEEEEEeCCCCCCceEEEEEe
Confidence 34556666655443334566666665553 355544
No 5
>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP + L-histidine tRNA(His)-> AMP + PPI + L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP: c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A
Probab=8.72 E-value=6.4e+02 Score=22.51 Aligned_cols=77 Identities=10% Similarity=-0.013 Sum_probs=49.1
Q ss_pred CeEEEEecC-CCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEE
Q 024165 42 LYCLPVYML-FILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 120 (271)
Q Consensus 42 pkilIttSr-~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~ 120 (271)
..++|+... .......++++.|++- -.+....+ ..+++.-...|...|+..+|++.+..-....+.+-.+..|-...
T Consensus 329 ~~v~i~~~~~~~~~~a~~l~~~Lr~~-i~v~~d~~-~~~~~~~~~~a~~~g~p~~iivG~~e~~~~~v~vk~~~~~~~~~ 406 (421)
T 1h4v_B 329 PDLYLIPLTEEAVAEAFYLAEALRPR-LRAEYALA-PRKPAKGLEEALKRGAAFAGFLGEDELRAGEVTLKRLATGEQVR 406 (421)
T ss_pred CeEEEEECChHHHHHHHHHHHHHHhc-CEEEEecC-CCCHHHHHHHHHhCCCCEEEEECchHhhcCcEEEEECCCCCceE
Confidence 457665543 3334567788888875 33333333 35888899999999999999997653223345565666664433
No 6
>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A
Probab=8.68 E-value=5.7e+02 Score=18.29 Aligned_cols=70 Identities=11% Similarity=0.002 Sum_probs=45.9
Q ss_pred eecccchhhccCC-CCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEE
Q 024165 28 IRQSTWAWDNLWH-FLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIV 97 (271)
Q Consensus 28 ~~~~~~~~~~l~~-~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi 97 (271)
+.-.+.+++.+.. .|.++|+--.-+......+++.++...|+....-=....-.+....|...|+..++.
T Consensus 52 ~~~~~~al~~l~~~~~dlii~D~~l~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~ 122 (150)
T 4e7p_A 52 AKNGQEAIQLLEKESVDIAILDVEMPVKTGLEVLEWIRSEKLETKVVVVTTFKRAGYFERAVKAGVDAYVL 122 (150)
T ss_dssp ESSHHHHHHHHTTSCCSEEEECSSCSSSCHHHHHHHHHHTTCSCEEEEEESCCCHHHHHHHHHTTCSEEEE
T ss_pred ECCHHHHHHHhhccCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHCCCcEEEe
Confidence 3344445555443 578888877777778899999999987776543322233345566677788887765
No 7
>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} SCOP: c.23.1.0
Probab=8.66 E-value=4.2e+02 Score=18.53 Aligned_cols=69 Identities=4% Similarity=-0.152 Sum_probs=42.3
Q ss_pred eecccchhhccCC-CCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEE
Q 024165 28 IRQSTWAWDNLWH-FLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSII 96 (271)
Q Consensus 28 ~~~~~~~~~~l~~-~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lI 96 (271)
+.-.+.+++.+.. .|.++|+--.-|......+++.|+...|+....-=....-.+....|...|+..++
T Consensus 37 ~~~~~~a~~~l~~~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l 106 (137)
T 3hdg_A 37 AGDGEEGERLFGLHAPDVIITDIRMPKLGGLEMLDRIKAGGAKPYVIVISAFSEMKYFIKAIELGVHLFL 106 (137)
T ss_dssp ESSHHHHHHHHHHHCCSEEEECSSCSSSCHHHHHHHHHHTTCCCEEEECCCCCCHHHHHHHHHHCCSEEC
T ss_pred ECCHHHHHHHHhccCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEEecCcChHHHHHHHhCCcceeE
Confidence 3333334443332 57888887777777889999999987777644322222223445556667777654
No 8
>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11
Probab=8.51 E-value=3.5e+02 Score=21.46 Aligned_cols=37 Identities=22% Similarity=0.219 Sum_probs=23.7
Q ss_pred HhCCCcEEEEEEecCCCCCeEEEEecCCCce--EEEEEe
Q 024165 88 KKKDFTSIIVVHTNRREPDALLIIGLPDGPT--AHFKLS 124 (271)
Q Consensus 88 ~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT--~~F~I~ 124 (271)
..+-|+.+++++..++..-.+.+.+.+.||+ +.|.|.
T Consensus 196 ~~~~~d~vi~l~~~~~~~r~l~v~K~r~~~~~~~~f~I~ 234 (243)
T 1n0w_A 196 IAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAIN 234 (243)
T ss_dssp -CCTTCEEEEEEECSTTEEEEEECCBTTBSCEEEEEEEE
T ss_pred hhhcCcEEEEEEEcCCCeEEEEEEECCCCCCCeEEEEEe
Confidence 4446788888877554334677777777775 456554
No 9
>4g84_A Histidine--tRNA ligase, cytoplasmic; synthetase; 2.40A {Homo sapiens}
Probab=8.24 E-value=3e+02 Score=25.10 Aligned_cols=84 Identities=8% Similarity=0.101 Sum_probs=54.7
Q ss_pred CeEEEEecCCC-CchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEE
Q 024165 42 LYCLPVYMLFI-LQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 120 (271)
Q Consensus 42 pkilIttSr~p-s~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~ 120 (271)
+.|+|...... -.....++.+|++-=-.+...-+++.+++.-...|...|+..+|++.+..-....+.|-++..|=...
T Consensus 367 ~~v~v~~~~~~~~~~a~~l~~~Lr~~Gi~ve~~~~~~~~l~~q~k~A~~~g~~~~viiG~~E~~~g~v~vK~l~tgeq~~ 446 (464)
T 4g84_A 367 TQVLVASAQKKLLEERLKLVSELWDAGIKAELLYKKNPKLLNQLQYCEEAGIPLVAIIGEQELKDGVIKLRSVTSREEVD 446 (464)
T ss_dssp CCEEEECSSSSCHHHHHHHHHHHHHTTCCEECCSCSSCCHHHHHHHHHHHTCCEEEECCHHHHHHTEEEEEETTTCCEEE
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHHHCCCcEEEEeCCCCCHHHHHHHHHHCCCCEEEEECchhhhCCEEEEEECCCCCeEE
Confidence 45666654332 24567889999885222333224455788889999999999999997753222357777777776555
Q ss_pred EEEec
Q 024165 121 FKLSK 125 (271)
Q Consensus 121 F~I~n 125 (271)
..+.+
T Consensus 447 v~~~e 451 (464)
T 4g84_A 447 VRRED 451 (464)
T ss_dssp EEGGG
T ss_pred eeHHH
Confidence 54443
No 10
>2kxe_A DNA polymerase II small subunit; D-family, archara, helical BU transferase; HET: DNA; NMR {Pyrococcus horikoshii}
Probab=8.09 E-value=1.2e+02 Score=21.15 Aligned_cols=34 Identities=26% Similarity=0.718 Sum_probs=24.5
Q ss_pred HHHHHHHh---cC-CCcE-----EcccccccHHHHHHHHHhCC
Q 024165 58 AFISELLS---VI-PNSH-----YYKRGTYDLKKIIEYAKKKD 91 (271)
Q Consensus 58 ~f~kdL~~---l~-Pns~-----~~~R~k~~lkdl~~~a~~~~ 91 (271)
.|++||.+ ++ |-+. +.++|+.++-+++.+|+.+|
T Consensus 6 elVk~L~~n~YLiTPsAYyLL~~~ykkg~FsL~ELiKFAksrg 48 (75)
T 2kxe_A 6 EFVKGLMKNGYLITPSAYYLLVGHFNEGKFSLIELIKFAKSRE 48 (75)
T ss_dssp HHHHHHHTTTCEECHHHHHHHHHHHHTTSSCHHHHHHHHHHHT
T ss_pred HHHHHHHHCCceeCchHHHHHHHHhhcccccHHHHHHHHHhcC
Confidence 47777754 23 4432 35678999999999999877
Done!