Query 023398
Match_columns 282
No_of_seqs 74 out of 76
Neff 3.6
Searched_HMMs 29240
Date Mon Mar 25 06:07:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023398.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/023398hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3pyi_B Spindle assembly abnorm 47.2 7.1 0.00024 33.5 1.5 26 225-250 36-61 (170)
2 2kw0_A CCMH protein; oxidoredu 40.5 11 0.00039 29.5 1.6 45 43-89 22-66 (90)
3 2hl7_A Cytochrome C-type bioge 40.0 12 0.0004 28.9 1.6 45 43-89 25-69 (84)
4 4adn_A FAR1; antibiotic resist 38.4 15 0.00051 33.0 2.3 51 39-91 58-109 (222)
5 3kyd_D Small ubiquitin-related 31.4 32 0.0011 27.7 3.0 29 223-256 39-68 (115)
6 2chq_A Replication factor C sm 28.3 2.5E+02 0.0086 23.3 8.2 86 19-110 159-244 (319)
7 3c1d_A Protein ORAA, regulator 27.6 50 0.0017 26.9 3.6 81 6-89 62-154 (159)
8 3dfg_A Xcrecx, regulatory prot 22.3 1.7E+02 0.0058 23.9 5.9 78 6-89 64-156 (162)
9 1exe_A Transcription factor 1; 21.4 1.2E+02 0.0042 22.8 4.5 35 43-78 4-38 (99)
10 2w9y_A CE-FAR-7, fatty acid/re 20.8 78 0.0027 26.6 3.5 52 21-91 83-137 (140)
11 2jxx_A Nfatc2-interacting prot 20.7 67 0.0023 24.9 2.9 31 223-257 24-55 (97)
12 2iie_A Integration HOST factor 20.5 1.2E+02 0.0042 26.0 4.8 37 42-79 49-85 (204)
13 1wm3_A Ubiquitin-like protein 20.3 73 0.0025 22.5 2.8 28 225-257 2-30 (72)
No 1
>3pyi_B Spindle assembly abnormal protein 6; beta-sandwich, dimer, alpha-beta protein, structural protein cytoplasmic, centriolar; HET: PG4 MES; 2.10A {Caenorhabditis elegans}
Probab=47.25 E-value=7.1 Score=33.51 Aligned_cols=26 Identities=31% Similarity=0.675 Sum_probs=22.8
Q ss_pred EEeecccCCCCCCCcceEEEEecHHH
Q 023398 225 ISLKLQDYTKSPSGETEVKFQLTKDT 250 (282)
Q Consensus 225 inlKlqd~~~~~~ge~evkfqlskdT 250 (282)
++||+-+-..-++||.|++|+||||.
T Consensus 36 v~LKI~E~rne~~geKeL~feLSrdd 61 (170)
T 3pyi_B 36 VKLKISEQRNETSGEKELKFEISRSD 61 (170)
T ss_dssp EEEEEEEEECTTTCCEEEEEEEECTT
T ss_pred heeeehhhhccccCCceeEEEeccCC
Confidence 78999886666889999999999985
No 2
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=40.54 E-value=11 Score=29.49 Aligned_cols=45 Identities=7% Similarity=0.138 Sum_probs=37.7
Q ss_pred hhHHHHHhhhcCCCCCCChhHHHHHHHHHHHHHHhhcCChhhhhhcC
Q 023398 43 SAEKSHVQSLLNLPSPGQVDPVVASLRSLIRKCVRENFTSDDLLKLF 89 (282)
Q Consensus 43 ~~l~~~~~~~LsL~S~~EadqLl~aLr~Lir~~v~~nlsse~Il~LF 89 (282)
..++.-.|..-+| .++.| ++-.-||.+|+.-+-+|-|+++|...|
T Consensus 22 ~~LRCpvCqnqsI-~dSnA-~iA~dlR~~Vre~l~~G~Sd~eI~~~m 66 (90)
T 2kw0_A 22 EELRCPKCQNNSI-ADSNS-MIATDLRQKVYELMQEGKSKKEIVDYM 66 (90)
T ss_dssp HSSBCSCTTSCTT-TSCCC-HHHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred HcCcCCCCCCCch-hhcCc-HHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 3455567888889 77777 899999999999999999999998654
No 3
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=40.03 E-value=12 Score=28.95 Aligned_cols=45 Identities=11% Similarity=0.227 Sum_probs=37.6
Q ss_pred hhHHHHHhhhcCCCCCCChhHHHHHHHHHHHHHHhhcCChhhhhhcC
Q 023398 43 SAEKSHVQSLLNLPSPGQVDPVVASLRSLIRKCVRENFTSDDLLKLF 89 (282)
Q Consensus 43 ~~l~~~~~~~LsL~S~~EadqLl~aLr~Lir~~v~~nlsse~Il~LF 89 (282)
..++.-.|..-+| .++++ ++-.-||.+|+.-+-+|-|+++|...|
T Consensus 25 ~~LRCp~Cqnqsi-~dSna-~iA~dlR~~V~~~l~~G~sd~eI~~~~ 69 (84)
T 2hl7_A 25 QELRCPKCQNQDI-ADSNA-PIAADLRKQIYGQLQQGKSDGEIVDYM 69 (84)
T ss_dssp HHEECTTSSSCBT-TTCCS-HHHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred HcCcCCCCCCCch-hhcCc-HHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 3455567888888 77777 899999999999999999999998754
No 4
>4adn_A FAR1; antibiotic resistance; 1.65A {Staphylococcus aureus} PDB: 4ado_A
Probab=38.41 E-value=15 Score=33.03 Aligned_cols=51 Identities=14% Similarity=0.242 Sum_probs=41.0
Q ss_pred CCCChhHHHHHhhhcCCC-CCCChhHHHHHHHHHHHHHHhhcCChhhhhhcCCC
Q 023398 39 TGLRSAEKSHVQSLLNLP-SPGQVDPVVASLRSLIRKCVRENFTSDDLLKLFPP 91 (282)
Q Consensus 39 tgl~~~l~~~~~~~LsL~-S~~EadqLl~aLr~Lir~~v~~nlsse~Il~LFPe 91 (282)
+.++....+-+.....+. +.+|+++.|..|...+.- |+.+|..+|.++||-
T Consensus 58 ~~~~~eq~~lL~~i~~~~lt~~~~e~~L~~Lk~yV~p--m~~lTe~qIrk~F~k 109 (222)
T 4adn_A 58 GHIDDDIEESLKVLMNIRLSNKEIEAILNKFLEYVVP--FELPSPQKLQKVFKK 109 (222)
T ss_dssp SSCCHHHHHHHHHHTSTTCCHHHHHHHHHHHHTTBCC--CCCCCHHHHHHHTTT
T ss_pred ccCCHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHcC--CCCCCHHHHHHHhhh
Confidence 556667777777777776 788999999888776654 899999999999994
No 5
>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation, inhibitor, TETR intermediate, ligase, nucleus, phosphoprotein; HET: VMX; 2.61A {Homo sapiens} SCOP: d.15.1.1
Probab=31.39 E-value=32 Score=27.67 Aligned_cols=29 Identities=24% Similarity=0.425 Sum_probs=22.0
Q ss_pred eEEEeecccCCCCCCCcceEEEEecHHH-HHHHHH
Q 023398 223 AVISLKLQDYTKSPSGETEVKFQLTKDT-LEAMLR 256 (282)
Q Consensus 223 AvinlKlqd~~~~~~ge~evkfqlskdT-Le~ML~ 256 (282)
..|+||+++ ....+|.|.+.+.| |..+.+
T Consensus 39 ~~I~LKV~~-----qdg~ev~fkIk~tt~L~KLm~ 68 (115)
T 3kyd_D 39 EYIKLKVIG-----QDSSEIHFKVKMTTHLKKLKE 68 (115)
T ss_dssp CEEEEEEEC-----TTSCEEEEEEETTSCTHHHHH
T ss_pred CeEEEEEEc-----CCCCEEEEEEccCChHHHHHH
Confidence 579999987 23456999999999 666543
No 6
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A
Probab=28.30 E-value=2.5e+02 Score=23.29 Aligned_cols=86 Identities=9% Similarity=0.106 Sum_probs=55.0
Q ss_pred cCCCHHHHHHHHHHhhcccCCCCChhHHHHHhhhcCCCCCCChhHHHHHHHHHHHHHHhhcCChhhhhhcCCCCccHHHH
Q 023398 19 AINSEQALDNILTTLWSTRKTGLRSAEKSHVQSLLNLPSPGQVDPVVASLRSLIRKCVRENFTSDDLLKLFPPDLSLDLQ 98 (282)
Q Consensus 19 KA~SKd~VrqIcq~~f~tR~tgl~~~l~~~~~~~LsL~S~~EadqLl~aLr~Lir~~v~~nlsse~Il~LFPedFh~nLk 98 (282)
+.++.+.+.++++..+...+-..+....+.++. . +......++..|..+... ...++.++|.++.......++.
T Consensus 159 ~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~---~-~~G~~r~~~~~l~~~~~~--~~~i~~~~v~~~~~~~~~~~~~ 232 (319)
T 2chq_A 159 KPVPKEAMKKRLLEICEKEGVKITEDGLEALIY---I-SGGDFRKAINALQGAAAI--GEVVDADTIYQITATARPEEMT 232 (319)
T ss_dssp CCCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHH---T-TTTCHHHHHHHHHHHHHS--SSCBCHHHHHHHTTCCCHHHHH
T ss_pred cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---H-cCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHCCCCHHHHH
Confidence 346788888888877665444556666666653 3 445555555555444321 2346668898888887777888
Q ss_pred HHHHHHHHHhhH
Q 023398 99 SNLILLLQKHQK 110 (282)
Q Consensus 99 nLLTkIi~en~~ 110 (282)
.++..++.++..
T Consensus 233 ~l~~~~~~~~~~ 244 (319)
T 2chq_A 233 ELIQTALKGNFM 244 (319)
T ss_dssp HHHHHHHHTCHH
T ss_pred HHHHHHHhCCHH
Confidence 888777765544
No 7
>3c1d_A Protein ORAA, regulatory protein RECX; tandem repeats, helix-turn-helix, cytoplasm, DNA damage, DNA repair, SOS response, DNA binding protein; 1.80A {Escherichia coli}
Probab=27.61 E-value=50 Score=26.88 Aligned_cols=81 Identities=9% Similarity=0.098 Sum_probs=44.8
Q ss_pred cchHHHHHHHHhhcCCCHHHHHHHHHHhhcccCCCCChhHHHHHhhhcCCCCCCChhHHHH------------HHHHHHH
Q 023398 6 GTDTLYLQLHKLSAINSEQALDNILTTLWSTRKTGLRSAEKSHVQSLLNLPSPGQVDPVVA------------SLRSLIR 73 (282)
Q Consensus 6 ~~~~~f~~L~~LlKA~SKd~VrqIcq~~f~tR~tgl~~~l~~~~~~~LsL~S~~EadqLl~------------aLr~Lir 73 (282)
+.|..|..--.=.+...+-.-+.|.+++ +..|.+..+++.+-..+.....+.|..++. .-..+++
T Consensus 62 ldD~rfA~~~v~~~~~~g~G~~~I~~eL---~~KGI~~~~i~~al~~~~~d~~~~a~~l~~kk~~~~~~~~~~~~~K~~~ 138 (159)
T 3c1d_A 62 LDDSRFVARFIASRSRKGYGPARIRQEL---NQKGISREATEKAMREADIDWAALARDQATRKYGEPLPTVFSEKVKIQR 138 (159)
T ss_dssp CCHHHHHHHHHHHHHHTTCCHHHHHHHH---HHTTCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCSSCCCSHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHhCCccHHHHHHHH---HHcCCCHHHHHHHHHHcCHhHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence 3455555443333322223456677777 567889888887766655411111222221 1235677
Q ss_pred HHHhhcCChhhhhhcC
Q 023398 74 KCVRENFTSDDLLKLF 89 (282)
Q Consensus 74 ~~v~~nlsse~Il~LF 89 (282)
..+++|++.+.|..++
T Consensus 139 ~L~rrGF~~~~i~~~l 154 (159)
T 3c1d_A 139 FLLYRGYLMEDIQDIW 154 (159)
T ss_dssp HHHHTTCCHHHHTTCC
T ss_pred HHHHCCCCHHHHHHHH
Confidence 7778888887776654
No 8
>3dfg_A Xcrecx, regulatory protein RECX; RECX RECA, homologous recombination, tandem repeats, three-helix bundle, cytoplasm; 1.50A {Xanthomonas campestris PV}
Probab=22.34 E-value=1.7e+02 Score=23.86 Aligned_cols=78 Identities=14% Similarity=0.080 Sum_probs=44.7
Q ss_pred cchHHHHHHHHhhcCCCHHHHHHHHHHhhcccCCCCChhHHHHHhhhcCCCCCCChhHHHHHH---------------HH
Q 023398 6 GTDTLYLQLHKLSAINSEQALDNILTTLWSTRKTGLRSAEKSHVQSLLNLPSPGQVDPVVASL---------------RS 70 (282)
Q Consensus 6 ~~~~~f~~L~~LlKA~SKd~VrqIcq~~f~tR~tgl~~~l~~~~~~~LsL~S~~EadqLl~aL---------------r~ 70 (282)
+.|..|..--.=.+..++-.-+.|.+++ +..|.+..+++.+-..+.. ++.+.+...+ ..
T Consensus 64 ldD~rfA~~~v~~~~~~~~G~~~I~~eL---~~KGI~~~~I~~al~~~~~---de~e~a~~l~~Kk~~~~~~~~~~~k~K 137 (162)
T 3dfg_A 64 QDDVRFAASVVRNRASSGYGPLHIRAEL---GTHGLDSDAVSAAMATFEG---DWTENALDLIRRRFGEDGPVDLAQRRK 137 (162)
T ss_dssp CCHHHHHHHHHHHHHTTTCCHHHHHHHH---HHTTCCHHHHHHHHTTCCS---CHHHHHHHHHHHHHCTTCCCSHHHHHH
T ss_pred CCHHHHHHHHHHHHHHccccHHHHHHHH---HHcCCCHHHHHHHHHhCcH---hHHHHHHHHHHHhcCCCCCCCHHHHHH
Confidence 4555665543333333334446777777 5679999888887776543 3332222222 24
Q ss_pred HHHHHHhhcCChhhhhhcC
Q 023398 71 LIRKCVRENFTSDDLLKLF 89 (282)
Q Consensus 71 Lir~~v~~nlsse~Il~LF 89 (282)
+++..+++|++.+.|...+
T Consensus 138 ~~~~L~rrGF~~~~I~~~l 156 (162)
T 3dfg_A 138 AADLLARRGFDGNSIRLAT 156 (162)
T ss_dssp HHHHHHHTTCCHHHHHHHT
T ss_pred HHHHHHHCCCCHHHHHHHH
Confidence 5666667777776666554
No 9
>1exe_A Transcription factor 1; beta ribbon ARMS, DNA-binding, DNA-bending protein; NMR {Bacillus phage SPO1} SCOP: a.55.1.1 PDB: 1wtu_A
Probab=21.41 E-value=1.2e+02 Score=22.80 Aligned_cols=35 Identities=17% Similarity=0.206 Sum_probs=21.9
Q ss_pred hhHHHHHhhhcCCCCCCChhHHHHHHHHHHHHHHhh
Q 023398 43 SAEKSHVQSLLNLPSPGQVDPVVASLRSLIRKCVRE 78 (282)
Q Consensus 43 ~~l~~~~~~~LsL~S~~EadqLl~aLr~Lir~~v~~ 78 (282)
.++++.++...++ +..++..++.++-..|..++-+
T Consensus 4 ~eLi~~ia~~~~l-sk~~~~~~l~~~~~~i~~~L~~ 38 (99)
T 1exe_A 4 TELIKAIAQDTGL-TQVSVSKMLASFEKIITETVAK 38 (99)
T ss_dssp THHHHHHHHHHCS-CCTTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCC-CHHHHHHHHHHHHHHHHHHHHC
Confidence 3456666666667 6777777777666666554443
No 10
>2w9y_A CE-FAR-7, fatty acid/retinol binding protein protein 7, isoform A, confirmed by transcript...; lipid transport; HET: CSX; 1.80A {Caenorhabditis elegans}
Probab=20.75 E-value=78 Score=26.59 Aligned_cols=52 Identities=8% Similarity=0.052 Sum_probs=37.1
Q ss_pred CCHHHHHHHHHHhhcccCCCCChhHHHHHhhhcCCCCCCChhHHHHHHHHHHHHHHhhcCCh---hhhhhcCCC
Q 023398 21 NSEQALDNILTTLWSTRKTGLRSAEKSHVQSLLNLPSPGQVDPVVASLRSLIRKCVRENFTS---DDLLKLFPP 91 (282)
Q Consensus 21 ~SKd~VrqIcq~~f~tR~tgl~~~l~~~~~~~LsL~S~~EadqLl~aLr~Lir~~v~~nlss---e~Il~LFPe 91 (282)
.||..|..++... ..+..+....-.+ +.+++.+++ .-|+.||. ++|.+=||.
T Consensus 83 eak~Fv~kli~~~---------r~l~~~~~~G~k~-~~~~lK~~~---------~~ykaLS~~aK~dL~k~FP~ 137 (140)
T 2w9y_A 83 AAVEYAKKLIHMV---------TTTLCSLTVGKPI-DDADAKRLH---------QEFQSLSSEDQAALRKNNPD 137 (140)
T ss_dssp HHHHHHHHHHHHH---------HHHHHHHHHTCCC-CTHHHHHHH---------HHHHTSCHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHH---------HHHHHHHhcCCCC-CHHHHHHHH---------HHHHcCCHHHHHHHHHhCcC
Confidence 5777888887766 3344554556666 777766543 67999998 899999995
No 11
>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells, cytoplasmic 2- interacting protein, ubiquitin like homologue; NMR {Homo sapiens}
Probab=20.69 E-value=67 Score=24.88 Aligned_cols=31 Identities=16% Similarity=0.416 Sum_probs=23.7
Q ss_pred eEEEeecccCCCCCCCcceEEEEecHHH-HHHHHHH
Q 023398 223 AVISLKLQDYTKSPSGETEVKFQLTKDT-LEAMLRS 257 (282)
Q Consensus 223 AvinlKlqd~~~~~~ge~evkfqlskdT-Le~ML~~ 257 (282)
..|+||+++. .|..+|.|.+.|.| |..+.+.
T Consensus 24 ~~I~LkV~~~----dg~~~v~fkIk~~t~l~kLm~a 55 (97)
T 2jxx_A 24 QQLQLRVQGK----EKHQTLEVSLSRDSPLKTLMSH 55 (97)
T ss_dssp SEEEEEEEES----SSSCEEEEEEETTSCHHHHHHH
T ss_pred CeEEEEEEcC----CCCEEEEEEECCCChHHHHHHH
Confidence 3699999872 33358999999999 8777665
No 12
>2iie_A Integration HOST factor; DNA kinking, bending, U-turn, intercalation, divalent, metal, recombination/DNA complex; HET: DNA; 2.41A {Escherichia coli} PDB: 2iif_A*
Probab=20.50 E-value=1.2e+02 Score=26.02 Aligned_cols=37 Identities=16% Similarity=0.202 Sum_probs=24.1
Q ss_pred ChhHHHHHhhhcCCCCCCChhHHHHHHHHHHHHHHhhc
Q 023398 42 RSAEKSHVQSLLNLPSPGQVDPVVASLRSLIRKCVREN 79 (282)
Q Consensus 42 ~~~l~~~~~~~LsL~S~~EadqLl~aLr~Lir~~v~~n 79 (282)
-.++++.++...++ +..++..++.++-..|...+-+|
T Consensus 49 k~eLi~~ia~~~~l-sk~da~~vl~~l~~~i~~~L~~G 85 (204)
T 2iie_A 49 KAEMSEYLFDKLGL-SKRDAKELVELFFEEIRRALENG 85 (204)
T ss_dssp HHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHHHhCC
Confidence 36666777777777 67777777776666666655443
No 13
>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two helices, protein transport; 1.20A {Homo sapiens} SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B
Probab=20.26 E-value=73 Score=22.46 Aligned_cols=28 Identities=25% Similarity=0.549 Sum_probs=20.9
Q ss_pred EEeecccCCCCCCCcceEEEEecHHH-HHHHHHH
Q 023398 225 ISLKLQDYTKSPSGETEVKFQLTKDT-LEAMLRS 257 (282)
Q Consensus 225 inlKlqd~~~~~~ge~evkfqlskdT-Le~ML~~ 257 (282)
|++|+++. ...+|.|.+.+.| |+.+.+.
T Consensus 2 i~lkV~~~-----~g~~v~~~v~~~t~l~kl~~~ 30 (72)
T 1wm3_A 2 INLKVAGQ-----DGSVVQFKIKRHTPLSKLMKA 30 (72)
T ss_dssp EEEEEECT-----TSCEEEEEECTTSCTHHHHHH
T ss_pred EEEEEECC-----CCCEEEEEECCCChHHHHHHH
Confidence 78898862 2358999999988 7776654
Done!