Query 020495
Match_columns 325
No_of_seqs 159 out of 771
Neff 5.5
Searched_HMMs 29240
Date Mon Mar 25 03:50:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020495.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020495hhsearch_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 99.9 6.6E-25 2.3E-29 200.6 16.5 133 49-187 32-168 (217)
2 1w94_A MIL, probable BRIX-doma 99.1 3E-10 1E-14 98.8 9.5 85 52-145 1-85 (156)
3 3u30_A Ubiquitin, linear DI-ub 7.1 6.6E+02 0.023 20.3 5.4 79 63-145 44-123 (172)
4 3ndh_A Restriction endonucleas 6.7 2.9E+02 0.0097 23.9 2.8 72 232-310 125-203 (225)
5 3fkh_A Putative pyridoxamine 5 6.5 5.6E+02 0.019 20.4 4.5 63 198-275 39-102 (138)
6 1fdm_A FD coat protein, FD maj 6.2 1.1E+02 0.0037 21.3 -0.1 20 297-318 8-27 (50)
7 3iv4_A Putative oxidoreductase 4.8 3.1E+02 0.011 21.6 1.8 20 254-273 90-110 (112)
8 2vfk_A AKAP18 delta; APO, hydr 4.6 3.1E+02 0.011 22.7 1.8 22 239-262 80-101 (205)
9 3mtn_B UBA80, ubcep1, ubiquiti 4.6 6.1E+02 0.021 17.4 3.2 25 121-145 6-30 (85)
10 3a9j_A Ubiquitin; protein comp 4.6 4.8E+02 0.017 17.4 2.6 23 123-145 5-27 (76)
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=99.92 E-value=6.6e-25 Score=200.61 Aligned_cols=133 Identities=14% Similarity=0.146 Sum_probs=123.1
Q ss_pred cCCeEEEEecCCCCHHHHHHHHHHHhcCCCCcccchhhccCCChhhHHHHhhhCCCCeEEEEEeecCCCCeEEEEeCCCC
Q 020495 49 NKEKVLVTCSRRINFRYRHLMLNVVSLLPHCKKDNKVEAKSSKGATLNELVELKSCSSCLFFECRKHKDLYLWMAKSPNG 128 (325)
Q Consensus 49 n~~kvLI~~sr~~s~~~r~LmkDLr~L~P~skk~~K~~~kn~~lk~l~~~a~~~~~s~~i~f~~~KK~~~~L~i~rlP~G 128 (325)
.++|+||||||++|.++++|++||..++||+.+ ++|++..+++|.+.|..++|+++++++++++.|.+|||.++|+|
T Consensus 32 ~~pKvLITTSr~pS~r~r~fakeL~~~lPns~~---i~Rgk~sLkeL~e~a~~~~~tdlivV~e~rg~p~~L~~~hlP~G 108 (217)
T 2cxh_A 32 GGYRILVTTSRRPSPRIRSFVKDLSATIPGAFR---FTRGHYSMEELAREAIIRGADRIVVVGERRGNPGIIRVYAVEGP 108 (217)
T ss_dssp -CCEEEEEESSSCCHHHHHHHHHHHTTSTTEEE---CCCTTCCHHHHHHHHHHTTEEEEEEEEEETTEEEEEEEEECCSS
T ss_pred CCCeEEEEcCCCCCHHHHHHHHHHHHHCCCCEE---eecCCcCHHHHHHHHHhCCCCEEEEEEecCCCCcEEEEEECCCC
Confidence 489999999999999999999999999999875 44566689999999999999999999999988999999999999
Q ss_pred ---C-eEEEEecceeehhhhhccCCCCCCCCCeEEEcCCCCChhhHHHHHHHHHhcCCCCCCC
Q 020495 129 ---P-SVKFLVNAVHTMEELKLTGNHLKASRPLLTFSSNFGKDAHWKLIKEMIIQIFGTPKEH 187 (325)
Q Consensus 129 ---P-Ti~F~I~n~~~~~elk~~gn~~kgsrPlLvF~~~F~~~~hlklik~lf~~~F~~p~~~ 187 (325)
| |++|+|.|+++++|++.+||+..+++|.|+ .+|++. +.+++++||+++|+.|...
T Consensus 109 ~~~P~Ta~F~I~nv~l~~ei~~~g~~~~~~rP~L~--~nF~t~-~g~~i~~~f~~lFp~P~~~ 168 (217)
T 2cxh_A 109 ERPDNIVSFIVKGVSLSRERRWGLPSLRGGEVLVA--RPLDSG-VAVEFADAFVIAFHARLKP 168 (217)
T ss_dssp SCCEEEEEEEEEEEECHHHHTCCCCCCCSCCEEEE--EESSSS-THHHHHHHHHHHHCCBSSC
T ss_pred CCCCcEEEEEEeeEEehhhhccCCCccCCCCceEE--eeecCc-hHHHHHHHHHHHcCCCCCC
Confidence 9 999999999999999999999999999999 489987 7889999999999998763
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=99.09 E-value=3e-10 Score=98.77 Aligned_cols=85 Identities=11% Similarity=0.018 Sum_probs=71.9
Q ss_pred eEEEEecCCCCHHHHHHHHHHHhcCCCCcccchhhccCCChhhHHHHhhhCCCCeEEEEEeecCCCCeEEEEeCCCCCeE
Q 020495 52 KVLVTCSRRINFRYRHLMLNVVSLLPHCKKDNKVEAKSSKGATLNELVELKSCSSCLFFECRKHKDLYLWMAKSPNGPSV 131 (325)
Q Consensus 52 kvLI~~sr~~s~~~r~LmkDLr~L~P~skk~~K~~~kn~~lk~l~~~a~~~~~s~~i~f~~~KK~~~~L~i~rlP~GPTi 131 (325)
|++||||+++|.++++++++|..++ ++.. +.|++..+++|.+.|... ++++.++++.|+.|.+.++|+|||+
T Consensus 1 kilITTSr~Ps~~l~~fakeLa~~l-n~~~---v~Rgk~sl~~L~~~~~~~----~iVV~e~rg~P~~l~i~hlp~gpt~ 72 (156)
T 1w94_A 1 HMLLTTSRKPSQRTRSFSQRLSRIM-GWRY---INRGKMSLRDVLIEARGP----VAVVSERHGNPARITFLDERGGERG 72 (156)
T ss_dssp CCEEEECSSCCHHHHHHHHHHHHHH-TCEE---CCCTTCCHHHHHHHHSSC----EEEEEEETTEEEEEEEECTTSCEEE
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHh-CCEE---EeeCCcCHHHHHHhcCCC----EEEEEcCCCCCCeEEEEeCCCCCEE
Confidence 5799999999999999999999999 7764 556665788888777443 6666666667999999999999999
Q ss_pred EEEecceeehhhhh
Q 020495 132 KFLVNAVHTMEELK 145 (325)
Q Consensus 132 ~F~I~n~~~~~elk 145 (325)
+|++ |+.+.+|+.
T Consensus 73 ~f~~-nv~l~~~~~ 85 (156)
T 1w94_A 73 YILF-NPSFEMKKP 85 (156)
T ss_dssp EEEE-EEEECSSCC
T ss_pred EEEE-ceEEcccCc
Confidence 9999 999999985
No 3
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}
Probab=7.12 E-value=6.6e+02 Score=20.25 Aligned_cols=79 Identities=18% Similarity=0.220 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHhcCCCCcccchhhccC-CChhhHHHHhhhCCCCeEEEEEeecCCCCeEEEEeCCCCCeEEEEecceeeh
Q 020495 63 FRYRHLMLNVVSLLPHCKKDNKVEAKS-SKGATLNELVELKSCSSCLFFECRKHKDLYLWMAKSPNGPSVKFLVNAVHTM 141 (325)
Q Consensus 63 ~~~r~LmkDLr~L~P~skk~~K~~~kn-~~lk~l~~~a~~~~~s~~i~f~~~KK~~~~L~i~rlP~GPTi~F~I~n~~~~ 141 (325)
..++..+.+...+-|. ....-+..+. ++-..|.++....+.+..++.... ...-.+.+..+|-++.+.|..-.+.
T Consensus 44 ~~lK~~I~~~~gip~~-~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~---gg~~i~Vk~~~g~~~~l~v~~~~tV 119 (172)
T 3u30_A 44 ENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR---GGMQIFVKTLTGKTITLEVEPSDTI 119 (172)
T ss_dssp HHHHHHHHHHHCCCGG-GEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCC---CCEEEEEEESSCCEEEEEECTTCBH
T ss_pred HHHHHHHHHHHCcChH-HEEEEECCccccccCCHhHcCCcccceeeeeeccc---ccccceeecccCcceeEEecCCCCH
Confidence 3445555555443333 2222222211 222345555555555555444332 2223445677787777777766666
Q ss_pred hhhh
Q 020495 142 EELK 145 (325)
Q Consensus 142 ~elk 145 (325)
.++|
T Consensus 120 ~~lK 123 (172)
T 3u30_A 120 ENVK 123 (172)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 6665
No 4
>3ndh_A Restriction endonuclease THAI; endonuclease-DNA complex, restriction enzyme, THAI, intercal hydrolase-DNA complex; HET: DNA PGE; 1.30A {Thermoplasma acidophilum}
Probab=6.73 E-value=2.9e+02 Score=23.91 Aligned_cols=72 Identities=22% Similarity=0.217 Sum_probs=45.9
Q ss_pred eEEEEecceeeEEEEEEecCCCCCCeeeeCCCcCCHHHHHHHh----hhhcccc-c--cccccccchhHHHHHHHHhhhc
Q 020495 232 MTLVEVGPRFCLNPIKIFGGSFGGPTLYENPFYVSPNQVRKVL----SFLLHFE-R--KSLCSICIVDKIVLKTLMDSLG 304 (325)
Q Consensus 232 v~L~EIGPRf~LkL~KI~~G~f~G~vLy~n~~~~Sp~~~r~~~----k~~~~l~-~--k~~~~~~~~~~~~~~~~~~~~~ 304 (325)
.-|+---|||+|-|.-|-=|+.+| + |--|+++.+.. -+.|-.+ + -+--+|--+.+..|+.+|++-.
T Consensus 125 ~fletw~p~~d~il~hinw~s~g~--~-----yyip~~vq~~ifd~~g~~kyiKLPKqGTNpRGVEiSn~Al~e~i~~~~ 197 (225)
T 3ndh_A 125 QFLETWHPRFDLILVHINWSSLGG--V-----YYIPDYVQQRIFDEIGKDKYIKLPKQGTNPRGVEISNEALKEIMTDEE 197 (225)
T ss_dssp HHHHHCCCCSEEEEEEECTTSEEE--E-----EEECHHHHHHHHHHHCHHHHEECCCTTSCCCSEEECHHHHHHHHHSTT
T ss_pred HHHHhhCccccEEEEEecccccCc--e-----EEccHHHHHHHHHHhchhheEeCCcCCCCCCceeccHHHHHHHhcccc
Confidence 345566899999999997777665 2 33344444322 1222211 1 2344667778899999999988
Q ss_pred cccccc
Q 020495 305 TSRMSL 310 (325)
Q Consensus 305 ~~~~~~ 310 (325)
|-+.++
T Consensus 198 TmsI~I 203 (225)
T 3ndh_A 198 TMSIKI 203 (225)
T ss_dssp CEEEEE
T ss_pred ceEEEE
Confidence 876654
No 5
>3fkh_A Putative pyridoxamine 5'-phosphate oxidase; NP_601736.1, STR genomics, joint center for structural genomics, JCSG; HET: P33; 2.51A {Corynebacterium glutamicum atcc 13032}
Probab=6.55 E-value=5.6e+02 Score=20.42 Aligned_cols=63 Identities=10% Similarity=0.106 Sum_probs=31.2
Q ss_pred EEEEEeCCEEEEEEEEEeccCCCccccccCCcCceEEEEecceeeEEEEEEecCCCCCCeeeeCCCcC-CHHHHHHHhh
Q 020495 198 FVFSIVDDHIWFRNYQITVPHNESDKVARGGLDKMTLVEVGPRFCLNPIKIFGGSFGGPTLYENPFYV-SPNQVRKVLS 275 (325)
Q Consensus 198 isF~~~dd~I~fRhY~I~~k~ses~~~~~~~~~~v~L~EIGPRf~LkL~KI~~G~f~G~vLy~n~~~~-Sp~~~r~~~k 275 (325)
+.|-+.++.|+|+.- . + .++....-+|+.+|.+.......--.-+++-....+ ++++.+++++
T Consensus 39 v~f~~~~~~iyfh~a----~-g----------~K~~~i~~~~~V~f~vd~~~~~~~~SV~v~G~a~~v~d~~e~~~a~~ 102 (138)
T 3fkh_A 39 VNFIVDKGAIYIRTA----E-G----------NKLFSMNLNHDVLFEADEVKDGKAWSVVVRATAEIVRKLDEIAYADT 102 (138)
T ss_dssp EEEEEETTEEEEEEE----C-------------------CCSEEEEEEEEEETTEEEEEEEEEEEEECCSHHHHHHHHH
T ss_pred EEEEEECCEEEEEeC----C-C----------hHHHHhhcCCCEEEEEEECCCCCCEEEEEEEEEEEECCHHHHHHHHh
Confidence 355667899999742 1 1 245666789999999887643200011122222333 5566666654
No 6
>1fdm_A FD coat protein, FD major coat protein; membrane protein, micelles, viral protein; NMR {Enterobacteria phage FD} SCOP: h.1.4.1 PDB: 1ifd_A 1ifi_A 1ifj_A 1mzt_A 2hi5_A 2cpb_A 2cps_A
Probab=6.20 E-value=1.1e+02 Score=21.29 Aligned_cols=20 Identities=35% Similarity=0.574 Sum_probs=14.8
Q ss_pred HHHHhhhcccccccccccceeE
Q 020495 297 KTLMDSLGTSRMSLDMLGYVVG 318 (325)
Q Consensus 297 ~~~~~~~~~~~~~~~~~~~~~~ 318 (325)
+.-||+||+. .-||+||.-|
T Consensus 8 ~aA~dsl~~q--atd~ig~~W~ 27 (50)
T 1fdm_A 8 KAAFDSLQAS--ATEYIGYAWA 27 (50)
T ss_dssp HHHHHHHHHS--SSSSCTTTTT
T ss_pred HHHHHHHHHH--HHHHHhhhhh
Confidence 4679999986 4688888643
No 7
>3iv4_A Putative oxidoreductase; APC23140, meticillin-resistant staphylococcus aureus, oxidor thioredoxin fold, structural genomics, PSI-2; HET: MSE; 1.50A {Staphylococcus aureus subsp}
Probab=4.82 E-value=3.1e+02 Score=21.62 Aligned_cols=20 Identities=5% Similarity=0.200 Sum_probs=14.9
Q ss_pred CCCeeee-CCCcCCHHHHHHH
Q 020495 254 GGPTLYE-NPFYVSPNQVRKV 273 (325)
Q Consensus 254 ~G~vLy~-n~~~~Sp~~~r~~ 273 (325)
+|+++|| +...++++.++++
T Consensus 90 ~G~~v~~~SH~~I~~~~l~~~ 110 (112)
T 3iv4_A 90 NGEMVWNRDHGDINVSSLAQA 110 (112)
T ss_dssp TTEEEEEEEGGGCSHHHHHHH
T ss_pred CCEEEEEeeccccCHHHHHHh
Confidence 5899999 5556888877654
No 8
>2vfk_A AKAP18 delta; APO, hydrolase; HET: AMP; 1.50A {Homo sapiens} PDB: 2vfl_A* 2vfy_A
Probab=4.64 E-value=3.1e+02 Score=22.65 Aligned_cols=22 Identities=23% Similarity=0.294 Sum_probs=18.5
Q ss_pred ceeeEEEEEEecCCCCCCeeeeCC
Q 020495 239 PRFCLNPIKIFGGSFGGPTLYENP 262 (325)
Q Consensus 239 PRf~LkL~KI~~G~f~G~vLy~n~ 262 (325)
|.|++.+..+ |.|.+.|||-..
T Consensus 80 ~pf~l~l~g~--~~F~~~vl~~~v 101 (205)
T 2vfk_A 80 KHLTLPFHGI--GTFQGQVGFVKL 101 (205)
T ss_dssp SCCEEEEEEE--EEETTTEEEEEE
T ss_pred CCcEEEEech--hhCCCcEEEEee
Confidence 6799999887 888888999964
No 9
>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} SCOP: d.15.1.1
Probab=4.63 E-value=6.1e+02 Score=17.39 Aligned_cols=25 Identities=24% Similarity=0.417 Sum_probs=15.0
Q ss_pred EEEeCCCCCeEEEEecceeehhhhh
Q 020495 121 WMAKSPNGPSVKFLVNAVHTMEELK 145 (325)
Q Consensus 121 ~i~rlP~GPTi~F~I~n~~~~~elk 145 (325)
...+.++|-++.+.+..-.|..++|
T Consensus 6 i~vk~~~g~~~~~~v~~~~tV~~lK 30 (85)
T 3mtn_B 6 IFVKTLTGKTITLEVEPSDTIENVK 30 (85)
T ss_dssp EEEECTTSCEEEEEECTTCBHHHHH
T ss_pred EEEEcCCCCEEEEEECCCCCHHHHH
Confidence 3445667777766666555555554
No 10
>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B 2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A 2o6v_D* 3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A 1fxt_B 1g6j_A 1nbf_C 1cmx_B 1q5w_B ...
Probab=4.60 E-value=4.8e+02 Score=17.38 Aligned_cols=23 Identities=26% Similarity=0.456 Sum_probs=13.0
Q ss_pred EeCCCCCeEEEEecceeehhhhh
Q 020495 123 AKSPNGPSVKFLVNAVHTMEELK 145 (325)
Q Consensus 123 ~rlP~GPTi~F~I~n~~~~~elk 145 (325)
.+.++|.++.+.+..-.|..+++
T Consensus 5 vk~~~g~~~~i~v~~~~tv~~lK 27 (76)
T 3a9j_A 5 VKTLTGKTITLEVEPSDTIENVK 27 (76)
T ss_dssp EEETTSCEEEEECCTTCBHHHHH
T ss_pred EEcCCCCEEEEEECCCCcHHHHH
Confidence 45566666666655555555554
Done!