Query psy8505
Match_columns 118
No_of_seqs 74 out of 76
Neff 4.2
Searched_HMMs 29240
Date Fri Aug 16 20:40:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8505.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8505hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2hzm_A RNA polymerase II media 99.9 1.5E-26 5E-31 182.1 11.5 112 3-117 43-161 (212)
2 1qd7_I S17 ribosomal protein; 61.8 9.4 0.00032 25.8 3.8 63 52-117 16-79 (89)
3 2vqe_Q 30S ribosomal protein S 58.4 8.8 0.0003 26.8 3.3 63 52-117 17-80 (105)
4 3r8n_Q 30S ribosomal protein S 57.3 5.2 0.00018 26.5 1.9 30 85-115 47-77 (80)
5 3mel_A Thiamin pyrophosphokina 42.2 9.6 0.00033 28.9 1.4 39 79-117 165-203 (222)
6 3k94_A Thiamin pyrophosphokina 40.2 11 0.00037 28.7 1.5 40 79-118 162-202 (223)
7 3lm8_A Thiamine pyrophosphokin 33.2 10 0.00035 28.7 0.3 40 79-118 165-205 (222)
8 3s4y_A Thiamin pyrophosphokina 32.2 15 0.0005 28.4 1.0 36 79-114 197-234 (247)
9 3cq9_A Uncharacterized protein 29.8 15 0.00053 27.9 0.8 37 80-117 166-203 (227)
10 3ihk_A Thiamin pyrophosphokina 28.8 6.9 0.00023 29.6 -1.3 37 79-115 160-196 (218)
11 1ig0_A Thiamin pyrophosphokina 27.5 22 0.00074 28.4 1.3 30 79-108 261-292 (319)
12 2g9z_A Thiamine pyrophosphokin 26.0 25 0.00086 28.6 1.5 30 79-108 289-319 (348)
13 3l8m_A Probable thiamine pyrop 21.3 12 0.00042 28.0 -1.2 37 80-116 163-200 (212)
14 3j21_B 50S ribosomal protein L 21.0 33 0.0011 27.1 1.2 26 86-118 28-53 (239)
No 1
>2hzm_A RNA polymerase II mediator complex subunit 20; beta barrel, channel, transcription; 2.40A {Saccharomyces cerevisiae} PDB: 3rj1_F 2hzs_A
Probab=99.94 E-value=1.5e-26 Score=182.12 Aligned_cols=112 Identities=13% Similarity=0.199 Sum_probs=89.6
Q ss_pred eEeecCccccccCCCcEEEEEecCCCCCeEEEEEcCCCCCCCCCC--CCCc----eeeeeeecchHHHHH-Hhcccceee
Q psy8505 3 TYHAGTGRYAHLGSQKTVHVLHNSEQPASVFSILESGVPGGPGGP--SGAV----KNIPVVADSLFDLLM-MKMTPVYTS 75 (118)
Q Consensus 3 ty~~~~~~~~~~g~~r~~~~l~~se~P~s~F~i~~~~~~~~~~~~--~~~~----k~~~l~aD~~fd~im-~kL~s~y~~ 75 (118)
|||+.+.+.+.. .+|.||+||+|++|.+|| +++++.+.-...+ +-|. +-.++.+|..||.+| .||+++|+.
T Consensus 43 ty~~~~~s~p~~-~sk~lytl~~S~~p~st~-li~~~sa~v~~~~~~~ip~~~~~~G~~~~~~~~FD~ll~~KL~siwtq 120 (212)
T 2hzm_A 43 TYRCSIKNLPAD-VSKLMYSITFHHHGRQTV-LIKDNSAMVTTAAAADIPPALVFNGSSTGVPESIDTILSSKLSNIWMQ 120 (212)
T ss_dssp EEEECSCCC-----CCEEEEEEEESSSEEEE-EEETTEEEEEECCGGGSCHHHHHTTSSCSCCCCHHHHHHHHSTTTEEE
T ss_pred EecCCcccCCCC-CceEEEEEeccCCCceEE-EEeCCcceeecccccccchhhhcCCccccCCccHHHHHHHHHHHHHhH
Confidence 899998833311 579999999999999999 9998310000000 0000 113799999999999 999999999
Q ss_pred ccceEEEEccceeEeCCeEEEEeeeEecCcccEEEEEEEEeC
Q psy8505 76 KKQTKVESKGPRFELGDFCVKLGSVSISQNFKAVLVEVRTSK 117 (118)
Q Consensus 76 r~~~kie~~G~~YelGDF~VrvG~Vt~~~~~rGilvEVEY~~ 117 (118)
|++.|.| .|.+|++|||+||+|+|++++++||++|||||++
T Consensus 121 rq~iKge-~G~~Y~~~df~VR~~Nvf~~~~fKGlLiEiEy~~ 161 (212)
T 2hzm_A 121 RQLIKGD-AGETLILDGLTVRLVNLFSSTGFKGLLIELQADE 161 (212)
T ss_dssp EEEEEEE-EEEEEEETTEEEEEEEEEETTEEEEEEEEEEESC
T ss_pred hhccccc-CCceeEecCEEEEEeeEEEcCcceeEEEEEEecC
Confidence 9999999 9999999999999999999999999999999985
No 2
>1qd7_I S17 ribosomal protein; 30S ribosomal subunit, low resolution model, ribosome; 5.50A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1eg0_G 1rip_A
Probab=61.78 E-value=9.4 Score=25.84 Aligned_cols=63 Identities=21% Similarity=0.199 Sum_probs=35.6
Q ss_pred eeeeeeecchHHHHHHhcccceeeccceEEEEccceeEeCCeEEEEeee-EecCcccEEEEEEEEeC
Q psy8505 52 KNIPVVADSLFDLLMMKMTPVYTSKKQTKVESKGPRFELGDFCVKLGSV-SISQNFKAVLVEVRTSK 117 (118)
Q Consensus 52 k~~~l~aD~~fd~im~kL~s~y~~r~~~kie~~G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY~~ 117 (118)
|++.+..+..+-.- +.+-..+.++.-..--+....++|| .|+|+.. -.+-+.++.++||...+
T Consensus 16 KTivV~ve~~~~hp--~Y~K~~kr~kk~~aHDe~n~~k~GD-~V~I~E~RPlSKtK~~~vv~iv~~a 79 (89)
T 1qd7_I 16 KTITVLVETYKKHP--LYGKRVKYSKKYKAHDEHNEAKVGD-IVKIMETRPLSATKRFRLVEIVEKA 79 (89)
T ss_pred ceEEEEEEEEEEcC--ccceEEeccEEEEEeCCccCCCCCC-EEEEEEcccCCCCEEEEEEEEEeec
Confidence 67666665554221 2222122222222233444677899 5777777 55579999999996543
No 3
>2vqe_Q 30S ribosomal protein S17; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: b.40.4.5 PDB: 1gix_T* 1hnw_Q* 1hnx_Q* 1hnz_Q* 1hr0_Q 1ibk_Q* 1ibl_Q* 1ibm_Q 1jgo_T* 1jgp_T* 1jgq_T* 1ml5_T* 1xmo_Q* 1xmq_Q* 1xnq_Q* 1xnr_Q* 1yl4_T 2b64_Q* 2b9m_Q* 2b9o_Q* ...
Probab=58.38 E-value=8.8 Score=26.75 Aligned_cols=63 Identities=19% Similarity=0.257 Sum_probs=37.3
Q ss_pred eeeeeeecchHHHHHHhcccceeeccceEEEEccceeEeCCeEEEEeee-EecCcccEEEEEEEEeC
Q psy8505 52 KNIPVVADSLFDLLMMKMTPVYTSKKQTKVESKGPRFELGDFCVKLGSV-SISQNFKAVLVEVRTSK 117 (118)
Q Consensus 52 k~~~l~aD~~fd~im~kL~s~y~~r~~~kie~~G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY~~ 117 (118)
|++.+..+..+-. -+.+-.++.++.-..--+....++|| .|+|+.. -.+-+.++.++||-..+
T Consensus 17 KTivV~ver~~~h--pkY~K~~kr~kk~~aHDe~n~~k~GD-~V~I~E~RPlSKtKr~~vv~iv~~a 80 (105)
T 2vqe_Q 17 KTVTVLVERQFPH--PLYGKVIKRSKKYLAHDPEEKYKLGD-VVEIIESRPISKRKRFRVLRLVESG 80 (105)
T ss_dssp TEEEEEEEEEEEC--TTTCCEEEEEEEEEEECTTCCCCTTC-EEEEEEEEEEETTEEEEEEEEEECC
T ss_pred cEEEEEEEEEEEc--CccceEEecceEEEEECCCCCCCCCC-EEEEEEcccCCCCEEEEEEEEeecc
Confidence 6666665555432 23333233333222333445677899 5777777 56679999999996543
No 4
>3r8n_Q 30S ribosomal protein S17; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_Q 3fih_Q* 3iy8_Q 3j18_Q* 2wwl_Q 3oar_Q 3oaq_Q 3ofb_Q 3ofa_Q 3ofp_Q 3ofx_Q 3ofy_Q 3ofo_Q 3r8o_Q 4a2i_Q 4gd1_Q 4gd2_Q 3i1m_Q 1vs7_Q* 3e1a_J ...
Probab=57.32 E-value=5.2 Score=26.53 Aligned_cols=30 Identities=23% Similarity=0.320 Sum_probs=22.4
Q ss_pred cceeEeCCeEEEEeee-EecCcccEEEEEEEE
Q psy8505 85 GPRFELGDFCVKLGSV-SISQNFKAVLVEVRT 115 (118)
Q Consensus 85 G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY 115 (118)
....++|| .|+|+.. -.+-+.++.++||-=
T Consensus 47 ~n~~~~GD-~V~I~e~RPlSKtk~~~v~~i~~ 77 (80)
T 3r8n_Q 47 NNECGIGD-VVEIRECRPLSKTKSWTLVRVVE 77 (80)
T ss_dssp GGCCCTTC-EEEEEEEEEEETTEEEEEEEEEC
T ss_pred CCCCCCCC-EEEEEEeccCCCcEeEEEEEEEE
Confidence 34466788 5677777 566799999999853
No 5
>3mel_A Thiamin pyrophosphokinase family protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium; HET: TPP; 2.79A {Enterococcus faecalis}
Probab=42.16 E-value=9.6 Score=28.89 Aligned_cols=39 Identities=10% Similarity=0.081 Sum_probs=29.1
Q ss_pred eEEEEccceeEeCCeEEEEeeeEecCcccEEEEEEEEeC
Q psy8505 79 TKVESKGPRFELGDFCVKLGSVSISQNFKAVLVEVRTSK 117 (118)
Q Consensus 79 ~kie~~G~~YelGDF~VrvG~Vt~~~~~rGilvEVEY~~ 117 (118)
+.+.++|.+|.|-|+.+.+|...-+..+.|=-++|+...
T Consensus 165 ~~lt~~Glky~L~~~~l~~g~~~~SNe~~~~~~~I~~~~ 203 (222)
T 3mel_A 165 ENLTLRRSKYLLTNQDVPYPTSYASNEFIEEAAAFSFDA 203 (222)
T ss_dssp EEEEEESBSSCEEEEEECSCEEEEEECBSSSEEEEECSB
T ss_pred ceEEEeccEEECCCCeeeCCCCCEeEEEECCeEEEEEeC
Confidence 459999999999999999998633555555456666544
No 6
>3k94_A Thiamin pyrophosphokinase; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG; 2.10A {Geobacillus thermodenitrificans}
Probab=40.20 E-value=11 Score=28.68 Aligned_cols=40 Identities=20% Similarity=0.264 Sum_probs=29.5
Q ss_pred eEEEEccceeEeCCeEEEEeee-EecCcccEEEEEEEEeCC
Q psy8505 79 TKVESKGPRFELGDFCVKLGSV-SISQNFKAVLVEVRTSKG 118 (118)
Q Consensus 79 ~kie~~G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY~~~ 118 (118)
..+.++|.+|.|-|+.+.+|.. +.+..+.|=-++|++..|
T Consensus 162 ~~lt~~Glky~L~~~~l~~~~~~~~SNe~~~~~~~I~~~~G 202 (223)
T 3k94_A 162 AEFTLTGFKYPLTNCHISRGSTLCISNELIQSSGTFSFSEG 202 (223)
T ss_dssp EEEEEESBSSCCCSEEEETTTSCCBCCCBCSSEEEEEESBS
T ss_pred eEEEEeccEEECCCCeecCCCceEEeeEEECCeEEEEEcCC
Confidence 3599999999999999999864 445555554567766543
No 7
>3lm8_A Thiamine pyrophosphokinase; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: VIB; 2.60A {Bacillus subtilis}
Probab=33.20 E-value=10 Score=28.73 Aligned_cols=40 Identities=23% Similarity=0.319 Sum_probs=29.0
Q ss_pred eEEEEccceeEeCCeEEEEeee-EecCcccEEEEEEEEeCC
Q psy8505 79 TKVESKGPRFELGDFCVKLGSV-SISQNFKAVLVEVRTSKG 118 (118)
Q Consensus 79 ~kie~~G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY~~~ 118 (118)
..+.++|.+|.|-|+.+.+|.. +.+..+.|=-++|++..|
T Consensus 165 ~~lt~~Glky~L~~~~l~~~~~~~~SNe~~~~~~~I~~~~G 205 (222)
T 3lm8_A 165 HELTLTGFKYPLNNCHITLGSTLCISNELIHSRGTFSFVKG 205 (222)
T ss_dssp EEEEEESBSSCEEEEEECTTCCTTSSBCBSSSEEEEEESBS
T ss_pred eeEEEeCcEEECCCCeecCCCeeEEeeEEECCeEEEEEccC
Confidence 3599999999999999999874 444555554466666543
No 8
>3s4y_A Thiamin pyrophosphokinase 1; structural genomics, structural genomics consortium, transferase; HET: TPP; 1.80A {Homo sapiens} PDB: 1ig3_A* 2f17_A*
Probab=32.19 E-value=15 Score=28.35 Aligned_cols=36 Identities=25% Similarity=0.481 Sum_probs=26.3
Q ss_pred eEEEEccceeEeCCeEEEEee-eEecCcccEE-EEEEE
Q psy8505 79 TKVESKGPRFELGDFCVKLGS-VSISQNFKAV-LVEVR 114 (118)
Q Consensus 79 ~kie~~G~~YelGDF~VrvG~-Vt~~~~~rGi-lvEVE 114 (118)
..+.++|.+|.|-|+.+.+|. ++.+..+.|= .|+||
T Consensus 197 ~~lt~~Glky~L~~~~l~~g~~~~~SNe~~~~~~v~I~ 234 (247)
T 3s4y_A 197 MQVTTTGLKWNLTNDVLAFGTLVSTSNTYDGSGVVTVE 234 (247)
T ss_dssp EEEEEESBSSCCSSEEEBTTTBCEEEECBCSCSEEEEE
T ss_pred eEEEEeccEEECCCCeecCCCceEEeeEEeCCceEEEE
Confidence 459999999999999998876 4545545443 55665
No 9
>3cq9_A Uncharacterized protein LP_1622; Q88WK7_lacpl, transferase, thiamine pyrophosphokinase, NESG, LPR114, structural genomics, PSI-2; 2.20A {Lactobacillus plantarum WCFS1}
Probab=29.82 E-value=15 Score=27.86 Aligned_cols=37 Identities=8% Similarity=0.062 Sum_probs=27.5
Q ss_pred EEEEccceeEeCCeEEEEeee-EecCcccEEEEEEEEeC
Q psy8505 80 KVESKGPRFELGDFCVKLGSV-SISQNFKAVLVEVRTSK 117 (118)
Q Consensus 80 kie~~G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY~~ 117 (118)
.+.++|.+|.|-|+.+.+|.. + +..+.|=-++|+...
T Consensus 166 ~lt~~Glky~L~~~~l~~g~~~~-SNe~~~~~~~I~~~~ 203 (227)
T 3cq9_A 166 HLTLPDEKYQLDAAYNAYPISWA-SNEFSGNTGHFSFDA 203 (227)
T ss_dssp EEEESSBSSCEEEEEESSCCCEE-EECBSSSEEEEEECS
T ss_pred eEEEeccEEECCCceeeCCCceE-ceeEECCeEEEEEcC
Confidence 599999999999999999865 5 555555445666544
No 10
>3ihk_A Thiamin pyrophosphokinase; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG, SMR83; HET: TPP; 3.00A {Streptococcus mutans}
Probab=28.77 E-value=6.9 Score=29.56 Aligned_cols=37 Identities=14% Similarity=0.152 Sum_probs=25.7
Q ss_pred eEEEEccceeEeCCeEEEEeeeEecCcccEEEEEEEE
Q psy8505 79 TKVESKGPRFELGDFCVKLGSVSISQNFKAVLVEVRT 115 (118)
Q Consensus 79 ~kie~~G~~YelGDF~VrvG~Vt~~~~~rGilvEVEY 115 (118)
..+.++|.+|.|-|+.+..|.+..+..+.|=-++|+.
T Consensus 160 ~~lt~~Glky~L~~~~l~~~~~~~SNe~~~~~~~I~~ 196 (218)
T 3ihk_A 160 AHLSIQDAKYELTEENYFQKKIYSSNEFKDKPICFSV 196 (218)
T ss_dssp CCEEEESSSSCBCTTTCCCCSEEEEECCCSSCEEEEE
T ss_pred CcEEEeccEEECCCccccCCCCcEeeEEECCeEEEEE
Confidence 4599999999999988877777555444443344444
No 11
>1ig0_A Thiamin pyrophosphokinase; protein-substrate complex, compound active site, alpha-beta- alpha, beta sandwich, transferase; HET: VIB; 1.80A {Saccharomyces cerevisiae} SCOP: b.82.6.1 c.100.1.1
Probab=27.54 E-value=22 Score=28.38 Aligned_cols=30 Identities=20% Similarity=0.370 Sum_probs=22.7
Q ss_pred eEEEEccceeEeCCeEEEE-e-eeEecCcccE
Q psy8505 79 TKVESKGPRFELGDFCVKL-G-SVSISQNFKA 108 (118)
Q Consensus 79 ~kie~~G~~YelGDF~Vrv-G-~Vt~~~~~rG 108 (118)
..+.++|.+|.|-+|.+.+ | .++.+..+.|
T Consensus 261 ~~ltt~GlKy~L~~~~l~~~g~~~stSNe~~~ 292 (319)
T 1ig0_A 261 LVKETRGLKWDVKNWPTSVVTGRVSSSNRFVG 292 (319)
T ss_dssp EEEEEESBSEEEEEEEEBTTTTBCEEEEEBCB
T ss_pred ceEEEeCcEEECCCceeccCCCcceEeeEEeC
Confidence 4599999999999999998 4 4555544444
No 12
>2g9z_A Thiamine pyrophosphokinase; thiamin-PNP, TPK, thiamin pyrophosphokinase, structural GENO profun, bacterial targets at IGS-CNRS, france, BIGS; HET: VNP; 1.96A {Candida albicans} PDB: 2hh9_A*
Probab=26.01 E-value=25 Score=28.62 Aligned_cols=30 Identities=13% Similarity=0.262 Sum_probs=22.7
Q ss_pred eEEEEccceeEeCCeEEEEeee-EecCcccE
Q psy8505 79 TKVESKGPRFELGDFCVKLGSV-SISQNFKA 108 (118)
Q Consensus 79 ~kie~~G~~YelGDF~VrvG~V-t~~~~~rG 108 (118)
..+.++|.+|.|-||.+++|.. +.+..+.|
T Consensus 289 ~~ltt~GLKy~L~~~~l~~g~~vstSNe~~~ 319 (348)
T 2g9z_A 289 IILNSYGLKYDMRNWKTEMLGQVSSSNRISG 319 (348)
T ss_dssp EEEEEESBSEEEESEEECTTSCCEEEEEBCB
T ss_pred ceEEEeCcEEECCCceecCCCceeEeeEEeC
Confidence 3599999999999999998863 43444444
No 13
>3l8m_A Probable thiamine pyrophosphokinase; thiamin diphosphate biosynthetic process, ATP binding, structural genomics, PSI-2; 2.40A {Staphylococcus saprophyticus}
Probab=21.28 E-value=12 Score=27.96 Aligned_cols=37 Identities=24% Similarity=0.363 Sum_probs=19.2
Q ss_pred EEEEccceeEeCCeEEEEeee-EecCcccEEEEEEEEe
Q psy8505 80 KVESKGPRFELGDFCVKLGSV-SISQNFKAVLVEVRTS 116 (118)
Q Consensus 80 kie~~G~~YelGDF~VrvG~V-t~~~~~rGilvEVEY~ 116 (118)
++.++|.+|.|-|+.+.+|.. +.+..+.|=-++|++.
T Consensus 163 ~lt~~Glky~L~~~~l~~~~~~~~SNe~~~~~~~I~~~ 200 (212)
T 3l8m_A 163 VISLKGFKYNLQNETLKLGSTLTISNELSQSCGNIEII 200 (212)
T ss_dssp EEESSSSCCSSEEC-------CCTTBCC---CCCEEEE
T ss_pred EEEEeccEEECCCCeecCCCeeEEeeEEECCeEEEEEc
Confidence 499999999999999999864 4444444433455544
No 14
>3j21_B 50S ribosomal protein L2P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=20.97 E-value=33 Score=27.07 Aligned_cols=26 Identities=12% Similarity=0.307 Sum_probs=19.8
Q ss_pred ceeEeCCeEEEEeeeEecCcccEEEEEEEEeCC
Q psy8505 86 PRFELGDFCVKLGSVSISQNFKAVLVEVRTSKG 118 (118)
Q Consensus 86 ~~YelGDF~VrvG~Vt~~~~~rGilvEVEY~~~ 118 (118)
.+|.+=||. |- ..++|++++|||.++
T Consensus 28 ~~yR~iDf~-r~------~~i~g~V~~IeyDPn 53 (239)
T 3j21_B 28 VKYIPLNYT-QE------KTLRGVVEEIMHDPG 53 (239)
T ss_dssp CCCCSTTCS-TT------CCEEEEEEEEEEETT
T ss_pred hhcceeccc-cC------CCccEEEEEEEECCC
Confidence 357777886 53 467799999999975
Done!