Query psy3908
Match_columns 170
No_of_seqs 29 out of 31
Neff 3.0
Searched_HMMs 29240
Date Fri Aug 16 20:28:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3908.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/3908hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3jxo_A TRKA-N domain protein; 45.4 7 0.00024 25.6 1.0 21 146-166 53-73 (86)
2 3puf_C Ribonuclease H2 subunit 39.1 8.6 0.00029 30.4 0.8 21 78-100 67-87 (167)
3 3kio_C Ribonuclease H2 subunit 32.4 12 0.0004 29.7 0.5 22 78-101 64-85 (166)
4 2gim_A Plastocyanin; beta shee 24.9 66 0.0023 21.3 3.3 33 130-163 1-33 (106)
5 3r8s_R 50S ribosomal protein L 23.0 80 0.0027 23.1 3.6 48 26-75 31-78 (103)
6 1p9k_A ORF, hypothetical prote 19.8 41 0.0014 22.3 1.3 26 142-167 50-75 (79)
7 1nep_A EPV20, BNPC2, epididyma 19.5 99 0.0034 22.4 3.5 19 95-113 105-123 (130)
8 3l4b_C TRKA K+ channel protien 19.0 34 0.0012 25.6 0.8 21 146-166 185-205 (218)
9 1vct_A Hypothetical protein PH 19.0 36 0.0012 26.3 1.0 19 147-165 164-182 (205)
10 4g65_A TRK system potassium up 17.3 76 0.0026 27.6 2.8 46 113-165 172-217 (461)
No 1
>3jxo_A TRKA-N domain protein; TRKA K+ channel component, structural genomics, PSI-2-2, Pro structure initiative, joint center for structural genomics; 1.55A {Thermotoga SP}
Probab=45.40 E-value=7 Score=25.61 Aligned_cols=21 Identities=14% Similarity=0.147 Sum_probs=17.1
Q ss_pred eeccceeeEecCceeeecccc
Q psy3908 146 LQSDGARIVNIGEVLLPKSEV 166 (170)
Q Consensus 146 ~~~~~~~Tl~aGe~L~l~g~~ 166 (170)
+.+.++..|++||.|.++|..
T Consensus 53 ~~p~~~~~l~~GD~l~v~g~~ 73 (86)
T 3jxo_A 53 VVPRGDTEILSGDKLYVIVSA 73 (86)
T ss_dssp ECCCTTCBCCTTCEEEEEEET
T ss_pred ECCCCCCEECCCCEEEEEECH
Confidence 346678899999999999863
No 2
>3puf_C Ribonuclease H2 subunit C; RNAse H fold, triple barrel fold, hydrolase, RNAse H; 3.10A {Homo sapiens} PDB: 3p56_C
Probab=39.13 E-value=8.6 Score=30.44 Aligned_cols=21 Identities=29% Similarity=0.648 Sum_probs=19.4
Q ss_pred cCceeccccceeeeCCCCCceeE
Q psy3908 78 EGRRFVGVGSRIDIPENYPGYFE 100 (170)
Q Consensus 78 Egr~v~~IGPkI~IP~~Y~G~F~ 100 (170)
+||+. +|=++.+|++|.|+--
T Consensus 67 RGR~L--~G~~v~lP~Gy~G~Vl 87 (167)
T 3puf_C 67 RGRCL--RGEEVAVPPGLVGYVM 87 (167)
T ss_dssp TTEEE--EECEEECCTTEEEEEE
T ss_pred cccee--eccEecCCCCcEEEEE
Confidence 89999 9999999999999863
No 3
>3kio_C Ribonuclease H2 subunit C; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_C
Probab=32.45 E-value=12 Score=29.70 Aligned_cols=22 Identities=23% Similarity=0.732 Sum_probs=19.7
Q ss_pred cCceeccccceeeeCCCCCceeEE
Q psy3908 78 EGRRFVGVGSRIDIPENYPGYFEL 101 (170)
Q Consensus 78 Egr~v~~IGPkI~IP~~Y~G~F~L 101 (170)
+||+. +|=++.+|++|.|+.--
T Consensus 64 RGR~L--~G~~v~lP~gy~G~V~~ 85 (166)
T 3kio_C 64 RGRGL--RGEEVAVPPGFAGFVMV 85 (166)
T ss_dssp TTEEE--EEEEEECCTTEEEEEEE
T ss_pred cCcee--cceEEeCCCCcEEEEEE
Confidence 89999 99999999999998643
No 4
>2gim_A Plastocyanin; beta sheet, Cu, helix, electron transport; 1.60A {Anabaena variabilis} SCOP: b.6.1.1 PDB: 1fa4_A 1nin_A 1tu2_A* 2cj3_A
Probab=24.93 E-value=66 Score=21.33 Aligned_cols=33 Identities=9% Similarity=-0.035 Sum_probs=18.4
Q ss_pred eeeeeeeeeeecCCCCeeccceeeEecCceeeec
Q psy3908 130 REAIKGIVAKYDEEGNLQSDGARIVNIGEVLLPK 163 (170)
Q Consensus 130 ~E~Ir~~~~~~~ed~~~~~~~~~Tl~aGe~L~l~ 163 (170)
||+++...+. ++++-.+..-..++++||++++.
T Consensus 1 ~~t~~V~~~~-~~~~~~F~P~~i~v~~Gd~V~~~ 33 (106)
T 2gim_A 1 METYTVKLGS-DKGLLVFEPAKLTIKPGDTVEFL 33 (106)
T ss_dssp CCEEEEEESC-TTCCSSEESSEEEECTTCEEEEE
T ss_pred CccEEEEEEe-cCCcceEcCCEEEECCCCEEEEE
Confidence 3555554431 11223454556788888887764
No 5
>3r8s_R 50S ribosomal protein L21; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1vs8_R 1vs6_R 2aw4_R 2awb_R 1vt2_R 2i2v_R 2j28_R 2i2t_R* 2qao_R* 2qba_R* 2qbc_R* 2qbe_R 2qbg_R 2qbi_R* 2qbk_R* 2qov_R 2qox_R 2qoz_R* 2qp1_R* 2rdo_R ...
Probab=22.99 E-value=80 Score=23.07 Aligned_cols=48 Identities=21% Similarity=0.326 Sum_probs=37.6
Q ss_pred hhcCCCeeEEeccCcccccCccCCCCCCcceeEeeeeccceeeeeeeehh
Q psy3908 26 SKNSLPTVVKIIKGQYGNLGVPTLPSPGLQSTVLLVSAGKRQKIIAQAVK 75 (170)
Q Consensus 26 sk~rLP~vvri~~Gqy~~lGvp~l~~~slq~~~Ll~sa~~r~~i~aqa~k 75 (170)
++..|..|.-+..|....+|.|.++ +-..++-++..++-.++++-=.+
T Consensus 31 ~~v~~~~VLlv~~~~~~~iG~P~v~--~a~V~a~V~~~~k~~Kv~vfK~k 78 (103)
T 3r8s_R 31 ETVEFAEVLMIANGEEVKIGVPFVD--GGVIKAEVVAHGRGEKVKIVKFR 78 (103)
T ss_dssp CEEEECCEEEEESSSEEECSSSSCT--TCEEEEEEEEEEECCCEEEEEEE
T ss_pred CEEEEeEEEEEecCCCEEECCcccC--CcEEEEEEEeccCCCcEEEEEec
Confidence 5667788888888888889999998 67777888888887787765433
No 6
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6
Probab=19.83 E-value=41 Score=22.26 Aligned_cols=26 Identities=8% Similarity=0.124 Sum_probs=18.6
Q ss_pred CCCCeeccceeeEecCceeeeccccc
Q psy3908 142 EEGNLQSDGARIVNIGEVLLPKSEVT 167 (170)
Q Consensus 142 ed~~~~~~~~~Tl~aGe~L~l~g~~~ 167 (170)
=||++....+..+.+||++++.|+..
T Consensus 50 VNG~~v~~~~~~v~~gd~I~v~~~~~ 75 (79)
T 1p9k_A 50 VDGAVETRKRCKIVAGQTVSFAGHSV 75 (79)
T ss_dssp ETTBCCCCSSCCCCSSEEEEETTEEE
T ss_pred ECCEEecCCCCCCCCCCEEEECCEEE
Confidence 35555545567789999999988753
No 7
>1nep_A EPV20, BNPC2, epididymal secretory protein E1; niemann-PICK C2, LDL, cholesterol, lipid bindin; HET: NAG; 1.70A {Bos taurus} SCOP: b.1.18.7 PDB: 2hka_A*
Probab=19.49 E-value=99 Score=22.37 Aligned_cols=19 Identities=16% Similarity=0.312 Sum_probs=16.1
Q ss_pred CCceeEEeccCCceeeeee
Q psy3908 95 YPGYFELLSEEGKSMRCCE 113 (170)
Q Consensus 95 Y~G~F~LLsed~~~vR~fe 113 (170)
|..+|+|.+++++.+=||+
T Consensus 105 ~~v~~~L~d~~~~~l~C~~ 123 (130)
T 1nep_A 105 VVVEWELTDDKNQRFFCWQ 123 (130)
T ss_dssp EEEEEEEECTTSCEEEEEE
T ss_pred EEEEEEEEcCCCCEEEEEE
Confidence 4489999999998888885
No 8
>3l4b_C TRKA K+ channel protien TM1088B; potassium channel, ring-gating complex, structural GEN PSI-2-2, protein structure initiative; HET: AMP; 3.45A {Thermotoga maritima}
Probab=19.04 E-value=34 Score=25.61 Aligned_cols=21 Identities=14% Similarity=0.147 Sum_probs=17.6
Q ss_pred eeccceeeEecCceeeecccc
Q psy3908 146 LQSDGARIVNIGEVLLPKSEV 166 (170)
Q Consensus 146 ~~~~~~~Tl~aGe~L~l~g~~ 166 (170)
+.+.++++|++||.|.++|..
T Consensus 185 ~~p~~~~~l~~gD~l~v~g~~ 205 (218)
T 3l4b_C 185 VVPRGDTEILSGDKLYVIVSA 205 (218)
T ss_dssp ECCCTTCBCCTTEEEEEEEEG
T ss_pred EcCCCCCEECCCCEEEEEECH
Confidence 456778999999999999863
No 9
>1vct_A Hypothetical protein PH0236; helix rich, structural genomics, riken structural genomics/P initiative, RSGI, NPPSFA; 1.85A {Pyrococcus horikoshii} SCOP: a.7.12.1 d.286.1.1 PDB: 2bkn_A 2bko_A 2bkp_A
Probab=19.03 E-value=36 Score=26.34 Aligned_cols=19 Identities=16% Similarity=0.330 Sum_probs=16.6
Q ss_pred eccceeeEecCceeeeccc
Q psy3908 147 QSDGARIVNIGEVLLPKSE 165 (170)
Q Consensus 147 ~~~~~~Tl~aGe~L~l~g~ 165 (170)
.+++++.|++||.|.+.|.
T Consensus 164 ~P~~dt~L~~GD~Liv~g~ 182 (205)
T 1vct_A 164 GPNENFKIRAGDVLIGRGT 182 (205)
T ss_dssp SCCTTCBCCTTCEEEEEEC
T ss_pred CCCCCCEECCCCEEEEEEC
Confidence 3677899999999999985
No 10
>4g65_A TRK system potassium uptake protein TRKA; structural genomics, center for structural genomics of infec diseases, csgid, niaid; HET: MSE; 2.09A {Vibrio vulnificus}
Probab=17.30 E-value=76 Score=27.56 Aligned_cols=46 Identities=7% Similarity=0.185 Sum_probs=31.2
Q ss_pred ehHHHHHhhccCcceEEeeeeeeeeeeecCCCCeeccceeeEecCceeeeccc
Q psy3908 113 ETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGARIVNIGEVLLPKSE 165 (170)
Q Consensus 113 esV~Ela~~fp~~rvlv~E~Ir~~~~~~~ed~~~~~~~~~Tl~aGe~L~l~g~ 165 (170)
.++.|+...||+..+.| ++-+-++--+.+.+++.+.+||++.++|.
T Consensus 172 ~~l~~l~~~~p~~~~~I-------~aI~R~g~~iiP~g~t~i~~gD~v~~i~~ 217 (461)
T 4g65_A 172 NALSALREHMPHIDTRV-------AAIFRQGRPIRPQGTTIIEADDEVFFVAA 217 (461)
T ss_dssp CBHHHHHHTSTTSCEEE-------EEEEETTEEECCCTTCBCCTTCEEEEEEE
T ss_pred CcHHHHHhhCCCCceEE-------EEEEECCeeccCCCCceecCCCEEEEEec
Confidence 46899999999433332 12111221377888999999999999875
Done!