Query 030628
Match_columns 174
No_of_seqs 21 out of 23
Neff 3.0
Searched_HMMs 29240
Date Tue Mar 26 18:32:05 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/030628.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2328-2331//hhsearch_pdb/030628hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1q90_G Cytochrome B6F complex 1.0 1 1 14.9 3.1 20 118-137 7-28 (37)
2 1vf5_G Protein PET G; photosyn 1.0 1 1 14.6 1.9 20 118-137 7-28 (37)
3 4f3m_A BH0337 protein; crispr, 1.0 1 1 14.3 -3.1 27 22-48 172-198 (238)
4 1jli_A Interleukin 3, multi-CS 1.0 1 1 14.1 3.3 68 75-148 3-74 (112)
5 1pfj_A TFIIH basal transcripti 1.0 1 1 13.7 -0.4 29 2-41 12-40 (108)
6 2rh1_A Beta-2-adrenergic recep 1.0 1 1 13.6 4.7 40 110-150 402-442 (500)
7 3j20_O 30S ribosomal protein S 1.0 1 1 13.2 -0.4 16 145-160 73-88 (148)
8 2dyj_A Ribosome-binding factor 1.0 1 1 12.8 0.9 24 7-32 26-49 (95)
9 2xzm_M RPS18E; ribosome, trans 1.0 1 1 12.6 -0.1 16 144-159 79-94 (155)
10 1pa4_A Probable ribosome-bindi 1.0 1 1 12.6 0.2 20 8-27 29-48 (116)
No 1
>1q90_G Cytochrome B6F complex subunit PETG; membrane protein complex, photosynthesis, electron transfer, oxydoreductase, chlorophyll; HET: HEM CL1 BCR TDS SQD LFA LMG; 3.10A {Chlamydomonas reinhardtii} SCOP: f.23.26.1
Probab=1.00 E-value=1 Score=14.88 Aligned_cols=20 Identities=30% Similarity=0.526 Sum_probs=15.6
Q ss_pred HHHHHHHHHH--HHHHHHHHHH
Q ss_conf 8999999999--7666876989
Q 030628 118 LALVFGVIAV--SSLAYTGILN 137 (174)
Q Consensus 118 l~LvfG~~~v--~sL~yT~~ln 137 (174)
+|.|+|++.+ +-|++|.+++
T Consensus 7 ~GIVlGlipvtlaGLfv~Ay~Q 28 (37)
T 1q90_G 7 CGIVLGLVPVTIAGLFVTAYLQ 28 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
T ss_conf 5477753899998999999999
No 2
>1vf5_G Protein PET G; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: f.23.26.1 PDB: 2d2c_G* 2e74_G* 2e75_G* 2e76_G* 2zt9_G*
Probab=1.00 E-value=1 Score=14.63 Aligned_cols=20 Identities=25% Similarity=0.418 Sum_probs=14.6
Q ss_pred HHHHHHHHHH--HHHHHHHHHH
Q ss_conf 8999999999--7666876989
Q 030628 118 LALVFGVIAV--SSLAYTGILN 137 (174)
Q Consensus 118 l~LvfG~~~v--~sL~yT~~ln 137 (174)
+|.|+|++.+ +-|+.|.+++
T Consensus 7 ~GIVlGlipvtl~GLfv~Ay~Q 28 (37)
T 1vf5_G 7 DGLVLGLVFATLGGLFYAAYQQ 28 (37)
T ss_dssp --CHHHHHHHHHHHHTHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
T ss_conf 5588853899998999999999
No 3
>4f3m_A BH0337 protein; crispr, ferredoxin fold, endoribonuclease, RNA, RNA binding; 1.71A {Bacillus halodurans}
Probab=1.00 E-value=1 Score=14.33 Aligned_cols=27 Identities=11% Similarity=0.108 Sum_probs=11.1
Q ss_pred HHCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf 000116888765787788999403358
Q 030628 22 EIKFADKQPIFPWGPRFAKSSPQDIRI 48 (174)
Q Consensus 22 dikYADkqp~~PW~PR~~~s~~kDi~I 48 (174)
|+-|+|..---+..|||+++-++|=+|
T Consensus 172 d~dy~d~~~~~~~~~~Ffra~m~~Gvi 198 (238)
T 4f3m_A 172 GFNYPDETGQHQLDVRLWSAVMENGYI 198 (238)
T ss_dssp EEECC----CCSCEEEEEEEEEETTEE
T ss_pred EECCCCCCCCCCCCEEEEEEEEECCEE
T ss_conf 103589888877732666305648399
No 4
>1jli_A Interleukin 3, multi-CSF; hematopoietic growth factor, colony-stimulating factor, cytokine; NMR {Homo sapiens} SCOP: a.26.1.2
Probab=1.00 E-value=1 Score=14.14 Aligned_cols=68 Identities=19% Similarity=0.165 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHCCCCCH
Q ss_conf 99999999989651489999--899998987246654557899998999999999766687698--999982753312
Q 030628 75 AFAFVYRFFEKLKSFEPAVS--PTYTEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAYTGIL--NLIEYAGGFIPA 148 (174)
Q Consensus 75 af~~v~r~f~KL~~~ePp~~--~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT~~l--n~ie~~g~~iP~ 148 (174)
|+.++--|..+|+..-+|++ ...|++ .-..-+++.++|.=.-+| +.++-++.=+..+ |+-|+ --..|.
T Consensus 3 cs~mi~EI~~~L~~~p~p~~~~~~Ln~~----e~~~L~~~tLrrpNL~aF-~~a~~~~~n~s~I~snLk~l-~pcLPt 74 (112)
T 1jli_A 3 CSIMIDEIIHHLKRPPNPLLDPNNLNSE----DMDILMERNLRTPNLLAF-VRAVKHLENASAIESILKNL-LPCLPL 74 (112)
T ss_dssp HHHHHHHHHHHSCCCCCCCCCSCCCCHH----HHHHHHSSTTHHHHHHHH-HHHHHHSTTCHHHHHHHHHH-GGGSCC
T ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCHH----HHHHHHHHCCCCCCHHHH-HHHHHHHHHHHHHHHHHHHC-CCCCCC
T ss_conf 8899999999757899994223548868----888886511254359999-99999762399999999865-666776
No 5
>1pfj_A TFIIH basal transcription factor complex P62 subunit; PH/PTB domain, structural proteomics in europe, spine, structural genomics; NMR {Homo sapiens} SCOP: b.55.1.9 PDB: 2rnr_B
Probab=1.00 E-value=1 Score=13.68 Aligned_cols=29 Identities=17% Similarity=0.488 Sum_probs=21.3
Q ss_pred HHHHHHHHCCCCCCCEEEEHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 3454444227643440220000011688876578778899
Q 030628 2 MEQLSKRKKGVTFGSFKVSKEIKFADKQPIFPWGPRFAKS 41 (174)
Q Consensus 2 maQLs~RkkG~t~Gs~~VsKdikYADkqp~~PW~PR~~~s 41 (174)
..+-+++|++ |.+.++.| .+-|.|.....
T Consensus 12 v~~v~yKK~d---GtL~l~~d--------~i~W~p~~~~~ 40 (108)
T 1pfj_A 12 VKKVRQKKQD---GALYLMAE--------RIAWAPEGKDR 40 (108)
T ss_dssp ESCCBCSSCB---CEEEEETT--------EEEEECSSSSS
T ss_pred EHHHEEECCC---CEEEEECC--------EEEECCCCCCC
T ss_conf 4213550589---46999726--------47981179997
No 6
>2rh1_A Beta-2-adrenergic receptor/T4-lysozyme chimera; GPCR, 7TM, fusion, lipidic cubic phase, lipidic, mesophase, cholesterol, membrane protein; HET: MAL CAU CLR PLM 12P; 2.40A {Homo sapiens} PDB: 3p0g_A* 3d4s_A* 3ny8_A* 3ny9_A* 3nya_A* 3pds_A*
Probab=1.00 E-value=1 Score=13.61 Aligned_cols=40 Identities=15% Similarity=0.351 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCCHHE
Q ss_conf 557899998999999999766687698999982-75331200
Q 030628 110 MGKRLLRCLALVFGVIAVSSLAYTGILNLIEYA-GGFIPAFL 150 (174)
Q Consensus 110 ~~KR~lRsl~LvfG~~~v~sL~yT~~ln~ie~~-g~~iP~~~ 150 (174)
..+|..|.+++|+++|++|=+-|... +++... +..+|.++
T Consensus 402 ~e~ka~ktl~ivv~~F~icWlP~~i~-~l~~~~~~~~~~~~~ 442 (500)
T 2rh1_A 402 KEHKALKTLGIIMGTFTLCWLPFFIV-NIVHVIQDNLIRKEV 442 (500)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHSTTSSCHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHCCCCCCHHH
T ss_conf 88899999999999999997799999-999997277553889
No 7
>3j20_O 30S ribosomal protein S13P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=1.00 E-value=1 Score=13.20 Aligned_cols=16 Identities=25% Similarity=0.299 Sum_probs=12.8
Q ss_pred CCCHHEECCCEEEEEH
Q ss_conf 3312002161135511
Q 030628 145 FIPAFLFDNQELIVTG 160 (174)
Q Consensus 145 ~iP~~~y~~Qel~vt~ 160 (174)
-||.|++|.|.=+.|.
T Consensus 73 ~iP~w~lNr~kD~~~G 88 (148)
T 3j20_O 73 GIPRWAVNRPKDYETG 88 (148)
T ss_dssp CCCTTTSSEEEETTTE
T ss_pred CCCHHHHCCCCCCCCC
T ss_conf 8976662466778889
No 8
>2dyj_A Ribosome-binding factor A; 16S rRNA processing, 17S RNA, KH domain; 1.84A {Thermus thermophilus} SCOP: d.52.7.1 PDB: 2r1c_A
Probab=1.00 E-value=1 Score=12.78 Aligned_cols=24 Identities=17% Similarity=0.062 Sum_probs=18.5
Q ss_pred HHHCCCCCCCEEEEHHHCCCCCCCCC
Q ss_conf 44227643440220000011688876
Q 030628 7 KRKKGVTFGSFKVSKEIKFADKQPIF 32 (174)
Q Consensus 7 ~RkkG~t~Gs~~VsKdikYADkqp~~ 32 (174)
-|...+|-..|.||+|-++|. .++
T Consensus 26 prl~~vtVt~V~vs~Dl~~Ak--Vyv 49 (95)
T 2dyj_A 26 PRLFLLTVEAVRLSKDGSVLS--VYV 49 (95)
T ss_dssp GGGTTCEEEEEEECTTSSEEE--EEE
T ss_pred CCCCCEEEEEEEECCCCCEEE--EEE
T ss_conf 666807997999879987799--999
No 9
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M
Probab=1.00 E-value=1 Score=12.63 Aligned_cols=16 Identities=19% Similarity=0.252 Sum_probs=12.4
Q ss_pred CCCCHHEECCCEEEEE
Q ss_conf 5331200216113551
Q 030628 144 GFIPAFLFDNQELIVT 159 (174)
Q Consensus 144 ~~iP~~~y~~Qel~vt 159 (174)
.-||.|++|.|.=+.|
T Consensus 79 ~~iP~w~lNr~kD~~~ 94 (155)
T 2xzm_M 79 HGIPTWLLNRINDFKD 94 (155)
T ss_dssp HCCCGGGCSEEEETTT
T ss_pred CCCCHHHHHCCCCCCC
T ss_conf 4797777615465577
No 10
>1pa4_A Probable ribosome-binding factor A; structural genomics, distant homology, BSGC structure funded by NIH, protein structure initiative, PSI; NMR {Mycoplasma pneumoniae} SCOP: d.52.7.1
Probab=1.00 E-value=1 Score=12.57 Aligned_cols=20 Identities=15% Similarity=0.112 Sum_probs=16.5
Q ss_pred HHCCCCCCCEEEEHHHCCCC
Q ss_conf 42276434402200000116
Q 030628 8 RKKGVTFGSFKVSKEIKFAD 27 (174)
Q Consensus 8 RkkG~t~Gs~~VsKdikYAD 27 (174)
|...+|-..|.||.|-++|.
T Consensus 29 rl~~vtVt~V~vs~Dl~~Ak 48 (116)
T 1pa4_A 29 TVKTGHVTHVKLSDDLLHVT 48 (116)
T ss_dssp CHHHHCCSCCEEETTTTEEE
T ss_pred CCCCEEEEEEEECCCCCEEE
T ss_conf 66946996999989987789
Done!