Query T0621 3NKG, , 172 residues
Match_columns 172
No_of_seqs 5 out of 7
Neff 2.1
Searched_HMMs 22458
Date Thu Jul 22 14:49:21 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0621.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/T0621.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2h4e_A Transthyretin; amyloid, 20.0 45 0.002 14.3 4.8 62 95-160 25-86 (127)
2 1ll8_A PAS kinase; PAS domain, 13.7 64 0.0028 13.4 2.2 24 91-114 83-106 (114)
3 1kmt_A RHO GDP-dissociation in 13.7 50 0.0022 14.0 1.1 48 2-52 20-69 (141)
4 2a9v_A GMP synthase; NP_394403 13.1 67 0.003 13.2 2.8 48 57-105 2-52 (212)
5 1z9b_A Translation initiation 12.8 22 0.00099 16.1 -0.9 37 5-42 69-105 (135)
6 1f86_A Transthyretin Thr119Met 12.4 70 0.0031 13.1 4.2 64 97-165 18-88 (115)
7 2oxg_Y SOXY protein; immunoglo 12.3 70 0.0031 13.1 3.8 37 52-104 19-55 (124)
8 3but_A Uncharacterized protein 10.9 56 0.0025 13.7 0.7 10 1-10 28-37 (136)
9 2nnc_A Sulfur covalently-bindi 9.2 90 0.004 12.4 4.4 35 1-35 68-103 (124)
10 2w36_A Endonuclease V; hypoxan 8.6 67 0.003 13.2 0.4 71 75-145 136-206 (225)
No 1
>2h4e_A Transthyretin; amyloid, sulfite, familial amyloidotic polyneuropathy, transport protein; HET: CSU; 1.45A {Homo sapiens} SCOP: b.3.4.1 PDB: 1zcr_A 1zd6_A 2trh_A 1bz8_A 2qpf_A 1tfp_A
Probab=19.99 E-value=45 Score=14.29 Aligned_cols=62 Identities=15% Similarity=0.146 Sum_probs=40.7
Q ss_pred EEEEEEEEEHHHCCCCEEEEEEEEEEECCCCCCHHHHHHHHEECCCCEEEEEEECCHHHHHHHCCC
Q ss_conf 564454201111257401222333554477750112234210003480799984010235551582
Q T0621 95 VVPIKITIHQINQDNTKKLIADNLYMTKGNGSGAYTRDITTISLDKGKYIFRIENIEAFSEMIGRK 160 (172)
Q Consensus 95 vipikltI~qI~~~nt~k~i~d~ly~t~~~g~~~~~r~i~~i~L~kGKY~i~VEt~eaf~Em~~~~ 160 (172)
+..+++++.++..++..++|... .|+..|+-. .....-.+..|.|+++..+-+=|..+...+
T Consensus 25 A~gv~V~L~~~~~~~~~~~i~~~--~Td~dGRi~--~~~~~~~~~~G~YeL~F~~~~Yf~~~~~~~ 86 (127)
T 2h4e_A 25 AINVAVHVFRKAADDTWEPFASG--KTSESGELH--GLTTEEEFVEGIYKVEIDTKSYWKALGISP 86 (127)
T ss_dssp CTTCEEEEEEECTTSCEEEEEEE--ECCTTSEEC--CSCCTTTCCSEEEEEEECHHHHHHHTTCCC
T ss_pred CCCCEEEEEEECCCCCEEEEEEE--ECCCCCCCC--CCCCCCCCCCEEEEEEEEHHHHHHHCCCCC
T ss_conf 68978999998899977899999--818998826--766745567767999998689898649997
No 2
>1ll8_A PAS kinase; PAS domain, ligand binding, ligand screening, kinase regulation, transferase; NMR {Homo sapiens} SCOP: d.110.3.5
Probab=13.73 E-value=64 Score=13.35 Aligned_cols=24 Identities=13% Similarity=0.365 Sum_probs=19.3
Q ss_pred CCCEEEEEEEEEEHHHCCCCEEEE
Q ss_conf 774056445420111125740122
Q T0621 91 CDGTVVPIKITIHQINQDNTKKLI 114 (172)
Q Consensus 91 ~~gTvipikltI~qI~~~nt~k~i 114 (172)
-+|+.+|+.+.+.++..++...++
T Consensus 83 kdG~~~pv~l~~~~i~~~~~~~~v 106 (114)
T 1ll8_A 83 RSGEKIPVSVWMKRMRQERRLCCV 106 (114)
T ss_dssp TTCCCEEEECCEECCBSSSSBEEE
T ss_pred CCCEEEEEEEEEEEEEECCEEEEE
T ss_conf 599799999999999999947999
No 3
>1kmt_A RHO GDP-dissociation inhibitor 1; immunoglobulin fold, beta sandwich motif, isoprenyl-binding, protein binding; 1.30A {Homo sapiens} SCOP: b.1.18.8 PDB: 2jhu_A 2jhv_A 2jhw_A 1ft3_A 1ft0_A 1qvy_A 2jhz_A 2bxw_A 2jhx_A 2jhy_A 1rho_A 1fso_A 2ji0_A 2jhs_A* 2jht_A 1ajw_A 1gdf_A
Probab=13.71 E-value=50 Score=13.98 Aligned_cols=48 Identities=19% Similarity=0.327 Sum_probs=31.2
Q ss_pred CCCEE--EECCCCCCCCEEEEEEECCCCEEEEEEEEEEEEHHHHCCCCCHHHH
Q ss_conf 98536--4304332465112133134014677778730001111035005678
Q T0621 2 PNPIS--IPIDLSQAGSVVEKEVKIEESWSYHLILQFAVHDRKEDGGLDGKRV 52 (172)
Q Consensus 2 p~P~t--iPIDlSkAGsvvE~eirI~E~~~y~~~l~f~~r~rk~~g~~dg~~v 52 (172)
|.|+. +|.|+++ .-..-|.|.|--.|.+-+.|.+..+--.|=++-..+
T Consensus 20 P~~i~ldl~~~~~~---lk~~~f~IKEGs~Y~i~i~F~V~~eivsGLky~q~v 69 (141)
T 1kmt_A 20 PGPLELDLTGDLES---FKKQSFVLKEGVEYRIKISFRVNREIVSGMKYIQHT 69 (141)
T ss_dssp SSCCEEETTSCGGG---GGGCCEEEETTCEEEEEEEEEECSSCEEEEEEEEEE
T ss_pred CCCEEECCCCCHHH---HCCCCEEECCCCEEEEEEEEEECCCEECCCEEEEEE
T ss_conf 98878638877456---047878935897899999999936220284899999
No 4
>2a9v_A GMP synthase; NP_394403.1, , structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI; 2.24A {Thermoplasma acidophilum} SCOP: c.23.16.1
Probab=13.08 E-value=67 Score=13.24 Aligned_cols=48 Identities=17% Similarity=0.179 Sum_probs=18.8
Q ss_pred CCCCCCCCCCC--EEEEECCHHHHHH-HHHHCCCCCCCCCEEEEEEEEEEHH
Q ss_conf 32224734571--5552041000111-1000013567774056445420111
Q T0621 57 GFNSYDPRDGK--QVGYVDYRLAKSE-LGDLIDETYDCDGTVVPIKITIHQI 105 (172)
Q Consensus 57 G~~~~~p~ngk--~~~~~~~~~a~~~-~~~~i~~t~~~~gTvipikltI~qI 105 (172)
|+++.+|.... |+.++||+..+.- +...+.+. .++.+|+|-.....++
T Consensus 2 ~~~~~~~~~~~m~ki~iID~g~~~~~~i~~~L~~l-G~~~~Iip~~~~~~~l 52 (212)
T 2a9v_A 2 GSDKIHHHHHHMLKIYVVDNGGQWTHREWRVLREL-GVDTKIVPNDIDSSEL 52 (212)
T ss_dssp --------CCCCCBEEEEEESCCTTCHHHHHHHHT-TCBCCEEETTSCGGGG
T ss_pred CCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHC-CCEEEEEECCCCHHHH
T ss_conf 86413325066457999999767899999999978-9848999697999998
No 5
>1z9b_A Translation initiation factor IF-2; protein synthesis translation intiation IF2 FMet-tRNA structure; NMR {Geobacillus stearothermophilus}
Probab=12.79 E-value=22 Score=16.12 Aligned_cols=37 Identities=16% Similarity=0.415 Sum_probs=18.1
Q ss_pred EEEECCCCCCCCEEEEEEECCCCEEEEEEEEEEEEHHH
Q ss_conf 36430433246511213313401467777873000111
Q T0621 5 ISIPIDLSQAGSVVEKEVKIEESWSYHLILQFAVHDRK 42 (172)
Q Consensus 5 ~tiPIDlSkAGsvvE~eirI~E~~~y~~~l~f~~r~rk 42 (172)
..+-|=.+-.|.+.|.|+..... +.+++++|.++-..
T Consensus 69 v~i~Ii~~~vG~ItesDv~lA~a-s~aiIigFnV~~~~ 105 (135)
T 1z9b_A 69 VRVKIIHAAVGAITESDISLATA-SNAIVIGFNVRPDA 105 (135)
T ss_dssp CEEEEEEEEESCBCHHHHHHHHH-HTCEEEESSCCBCT
T ss_pred EEEEEEECCCCCCCHHHHHCCCC-CCCEEEEECCCCCH
T ss_conf 36643110046563888843334-21269996267876
No 6
>1f86_A Transthyretin Thr119Met variant; protein stability, X-RAY amyloidogenesis, transport protein; HET: T44; 1.10A {Homo sapiens} SCOP: b.3.4.1 PDB: 1fhn_A 1bze_A 1fh2_A 1bzd_A 3fcb_A* 3fc8_A* 3cfm_A 3cfn_A* 3cfq_A* 3cft_A* 1f41_A 1bmz_A 1bm7_A 1e3f_A* 1e5a_A* 1e4h_A 1ict_A* 1tt6_A* 1tta_A 1tyr_A* ...
Probab=12.37 E-value=70 Score=13.11 Aligned_cols=64 Identities=17% Similarity=0.146 Sum_probs=39.3
Q ss_pred EEEEEEEHHHCCC-CEEEEEEEEEEECCCCCCHHHHHHHHEECCCCEEEEEEECCHHHHHHHCC------CEEEEE
Q ss_conf 4454201111257-40122233355447775011223421000348079998401023555158------258999
Q T0621 97 PIKITIHQINQDN-TKKLIADNLYMTKGNGSGAYTRDITTISLDKGKYIFRIENIEAFSEMIGR------KVDFTI 165 (172)
Q Consensus 97 pikltI~qI~~~n-t~k~i~d~ly~t~~~g~~~~~r~i~~i~L~kGKY~i~VEt~eaf~Em~~~------~V~f~I 165 (172)
.+.+++.+....+ |+ +|.. -.||..|+-. -....-.+..|.|+++-++-+=|.++... .|.|.|
T Consensus 18 gv~V~L~~~~~~~~w~-~i~~--~~Td~dGRi~--~l~~~~~~~~G~Y~L~F~t~~Yf~~~g~~~F~p~V~V~F~v 88 (115)
T 1f86_A 18 NVAVHVFRKAADDTWE-PFAS--GKTSESGELH--GLTTEEEFVEGIYKVEIDTKSYWKALGISPFHEHAEVVFTA 88 (115)
T ss_dssp TCEEEEEEECTTSCEE-EEEE--EECCTTSEEC--CSCCTTTCCSEEEEEEECHHHHHHHTTCCCSEEEEEEEEEE
T ss_pred CCEEEEEEECCCCCEE-EEEE--EEECCCCCCC--CCCCCCCCCCEEEEEEEEHHHHHHHCCCCCCCCEEEEEEEE
T ss_conf 9899999858999718-9899--9868999877--86784556775799999979989765999786517899997
No 7
>2oxg_Y SOXY protein; immunoglobulin-like beta-sandwich fold, transport protein; 1.40A {Paracoccus denitrificans} PDB: 2oxh_Y* 2ox5_Y*
Probab=12.30 E-value=70 Score=13.09 Aligned_cols=37 Identities=22% Similarity=0.316 Sum_probs=21.1
Q ss_pred HHHHHCCCCCCCCCCCEEEEECCHHHHHHHHHHCCCCCCCCCEEEEEEEEEEH
Q ss_conf 87761322247345715552041000111100001356777405644542011
Q T0621 52 VWKFLGFNSYDPRDGKQVGYVDYRLAKSELGDLIDETYDCDGTVVPIKITIHQ 104 (172)
Q Consensus 52 v~k~~G~~~~~p~ngk~~~~~~~~~a~~~~~~~i~~t~~~~gTvipikltI~q 104 (172)
...|+|-..- .+++ +-+.-|..| -+|.++|+++.+..
T Consensus 19 ~~a~~G~~~~--~~~~-I~l~aP~~A-------------EnGa~VPV~V~~~~ 55 (124)
T 2oxg_Y 19 TAAFTGGAAT--GEGG-LTLTAPEIA-------------ENGNTVPIEVKAPG 55 (124)
T ss_dssp HHHHHTTCCE--ECSS-CEEECCSEE-------------EETTSEEEEEECTT
T ss_pred HHHHCCCCCC--CCCE-EEEECCCCC-------------CCCCEEEEEEECCC
T ss_conf 9987199877--4882-899088722-------------47978219997499
No 8
>3but_A Uncharacterized protein AF_0446; lipid binding protein, beta barrel, protein structure initiative, PSI-2; 1.91A {Archaeoglobus fulgidus dsm 4304}
Probab=10.91 E-value=56 Score=13.68 Aligned_cols=10 Identities=20% Similarity=0.434 Sum_probs=6.4
Q ss_pred CCCCEEEECC
Q ss_conf 9985364304
Q T0621 1 NPNPISIPID 10 (172)
Q Consensus 1 ~p~P~tiPID 10 (172)
||+|+.+||+
T Consensus 28 NPN~~~l~i~ 37 (136)
T 3but_A 28 NEDVVPIVVS 37 (136)
T ss_dssp CCSSSCEEEE
T ss_pred CCCCCCEEEC
T ss_conf 9898675423
No 9
>2nnc_A Sulfur covalently-binding protein; sulfur binding protein, SOXY, beta sandwich, green sulfur bacterium, ligand binding protein; 2.14A {Chlorobium limicola} PDB: 2nnf_A
Probab=9.19 E-value=90 Score=12.43 Aligned_cols=35 Identities=14% Similarity=0.234 Sum_probs=0.0
Q ss_pred CCCCEEEECCCCCCCCE-EEEEEECCCCEEEEEEEE
Q ss_conf 99853643043324651-121331340146777787
Q T0621 1 NPNPISIPIDLSQAGSV-VEKEVKIEESWSYHLILQ 35 (172)
Q Consensus 1 ~p~P~tiPIDlSkAGsv-vE~eirI~E~~~y~~~l~ 35 (172)
||.|...-.+++..|.- +.+-||+.++........
T Consensus 68 NP~Pl~a~f~~~~~~~~~~stRiRm~~ts~V~ava~ 103 (124)
T 2nnc_A 68 NFSPMVASFDVLPRMKPEVSLRMRMAKTENLVVVVQ 103 (124)
T ss_dssp SSSCEEEEEEECTTSCCEEEEEEECCSSEEEEEEEE
T ss_pred CCCCEEEEEEECCCCCCEEEEEEEECCCCCEEEEEE
T ss_conf 999689999979998811378888168861999999
No 10
>2w36_A Endonuclease V; hypoxanthine, endonuclease, endonucleasev, hydrolase, inosine, DNA damage, DNA repair; HET: BRU; 2.10A {Thermotoga maritima} PDB: 2w35_A 3hd0_A
Probab=8.64 E-value=67 Score=13.20 Aligned_cols=71 Identities=11% Similarity=-0.077 Sum_probs=0.0
Q ss_pred HHHHHHHHHHCCCCCCCCCEEEEEEEEEEHHHCCCCEEEEEEEEEEECCCCCCHHHHHHHHEECCCCEEEE
Q ss_conf 00011110000135677740564454201111257401222333554477750112234210003480799
Q T0621 75 RLAKSELGDLIDETYDCDGTVVPIKITIHQINQDNTKKLIADNLYMTKGNGSGAYTRDITTISLDKGKYIF 145 (172)
Q Consensus 75 ~~a~~~~~~~i~~t~~~~gTvipikltI~qI~~~nt~k~i~d~ly~t~~~g~~~~~r~i~~i~L~kGKY~i 145 (172)
++||+.+..-..+.-+..|...++...=+.+.--=.++--+--+|+.-|.+-+.-+.---..++..++||+
T Consensus 136 GVAK~~L~g~~~~~~~~~g~~~~i~~~~~~vG~~lrt~~~~~PiyVS~Gh~i~le~A~~iv~~~~~~~~R~ 206 (225)
T 2w36_A 136 GVAKSRLYGTFKMPEDKRCSWSYLYDGEEIIGCVIRTKEGSAPIFVSPGHLMDVESSKRLIKAFTLPGRRI 206 (225)
T ss_dssp EEESSCSSCBCCCCCSSSSCEEEEEETTEEEEEEECCSTTSCCEEEEECSSCCHHHHHHHHHHHCCTTCSS
T ss_pred EEECCEECCCCCCCCCCCCCEEEECCCCEEEEEEEECCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCC
T ss_conf 34334340356675434674124346996999999778998898980897879999999999972589968
Done!