Query 009379
Match_columns 536
No_of_seqs 155 out of 1123
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 03:52:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009379.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/009379hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ife_A Protein (translation in 100.0 9.3E-29 3.2E-33 214.4 7.8 94 148-246 2-97 (100)
2 1i96_V Translation initiation 99.9 1.3E-27 4.3E-32 203.5 10.1 82 164-245 2-84 (89)
3 1tig_A IF3-C, translation init 99.9 1E-27 3.6E-32 205.7 8.4 84 163-246 6-90 (94)
4 1tif_A IF3-N, translation init 99.9 3.3E-27 1.1E-31 196.9 8.0 73 80-152 4-78 (78)
5 2crq_A Mitochondrial translati 99.9 2.7E-27 9.1E-32 208.8 6.4 95 149-254 5-103 (112)
6 2lpm_A Two-component response 17.2 1.5E+02 0.0052 25.3 4.7 21 104-124 41-61 (123)
7 4fhd_A Spore photoproduct lyas 16.5 2.3E+02 0.008 29.2 6.7 61 165-226 215-288 (368)
8 4fmw_A RNA (guanine-9-)-methyl 13.4 36 0.0012 32.2 -0.3 25 1-25 27-51 (197)
9 3gby_A Uncharacterized protein 11.3 1.8E+02 0.0063 23.3 3.4 24 90-113 100-125 (128)
10 2yzi_A Hypothetical protein PH 11.2 1.3E+02 0.0043 24.4 2.4 18 103-120 89-106 (138)
No 1
>2ife_A Protein (translation initiation factor IF3); gene regulation; NMR {Escherichia coli} SCOP: d.68.1.1
Probab=99.95 E-value=9.3e-29 Score=214.45 Aligned_cols=94 Identities=24% Similarity=0.397 Sum_probs=82.5
Q ss_pred HHHHhhccccccccccceeEEEeecCCcchHHHHHHHHHHHHhcCCeEEEEEEecCCcccchHHHH-HHHHHHHHhhhcc
Q 009379 148 KDRAKAKSDITLKKGDCKEVRFSGKIEQKDLQMKADTVKRLMDKGYRVKCMALPVGKKEETEDLGG-YLSRLIDLIEDIS 226 (536)
Q Consensus 148 KEaKKkqkk~~~r~~k~KEIrLs~~IdeHDL~~KlKQakkFLeKG~KVKVtI~fRGRE~~~qElge-lL~RV~e~LeEVg 226 (536)
+|++|+|+.+ .+|||+|+|+|++|||++|+++|++||++|++|+|+|+|||||++|.|+|. ||++|.++|+|+|
T Consensus 2 keakkkqk~~-----~vKEikl~p~Id~HD~~~K~k~a~~FL~~GdKVKvti~fRGRE~~h~e~g~~lL~r~~~~l~d~~ 76 (100)
T 2ife_A 2 EFQKKKQKVI-----QVKEIKFRPGTDEGDYQVKLRSLIRFLEEGDKAKITLRFRGREMAHQQIGMEVLNRVKDDLQELA 76 (100)
T ss_dssp --------CC-----EEEEEEECTTCCHHHHTHHHHHHHHHHHTTEEEEEEECCSSCTTCCSSHHHHHHHHHHHHHTTTE
T ss_pred chhhcccCCc-----eeEEEEecCCcCcchHHHHHHHHHHHHHCCCEEEEEEEECCccccCHHHHHHHHHHHHHHhhhhe
Confidence 5677777665 789999999999999999999999999999999999999999999999998 9999999999999
Q ss_pred ccccCc-ccCCceEEEEEecC
Q 009379 227 VVESGP-HVERKQAYAIIRHV 246 (536)
Q Consensus 227 ~VE~kP-k~EGK~m~miL~P~ 246 (536)
.+|..| +++|++|+|+|.|.
T Consensus 77 ~ve~~p~k~eGr~m~m~l~Pk 97 (100)
T 2ife_A 77 VVESFPTKIEGRQMIMVLAPK 97 (100)
T ss_dssp EESCCCCCCCSSCCEEEEEEC
T ss_pred EEecCcccccCceEEEEEEeC
Confidence 999999 99999999999553
No 2
>1i96_V Translation initiation factor IF3; 30S ribosome; HET: WO2; 4.20A {Thermus thermophilus} SCOP: d.68.1.1
Probab=99.94 E-value=1.3e-27 Score=203.51 Aligned_cols=82 Identities=27% Similarity=0.492 Sum_probs=79.8
Q ss_pred ceeEEEeecCCcchHHHHHHHHHHHHhcCCeEEEEEEecCCcccchHHHH-HHHHHHHHhhhccccccCcccCCceEEEE
Q 009379 164 CKEVRFSGKIEQKDLQMKADTVKRLMDKGYRVKCMALPVGKKEETEDLGG-YLSRLIDLIEDISVVESGPHVERKQAYAI 242 (536)
Q Consensus 164 ~KEIrLs~~IdeHDL~~KlKQakkFLeKG~KVKVtI~fRGRE~~~qElge-lL~RV~e~LeEVg~VE~kPk~EGK~m~mi 242 (536)
+|||+|+|+|++|||++|+++|++||++|+||||+|+|||||++|+|+|. +|++|.++|+|+|.+|+.|+++|++|+|+
T Consensus 2 vKEikl~p~Id~hD~~~K~k~a~~FL~~GdKVKvti~fRGRE~~h~e~g~~lL~r~~~~l~d~~~ve~~pk~eGr~m~m~ 81 (89)
T 1i96_V 2 VKSIKFRVKIDEHDYQTKLGHIKRFLQEGHKVKVTIMFRGREVAHPELGERILNRVTEDLKDLAVVEMKPEMLGRDMNML 81 (89)
T ss_pred ceEEEecCCcCcchHHHHHHHHHHHHHCCCEEEEEEEECCccccCHHHHHHHHHHHHHHhhhheEEecCccccCCEEEEE
Confidence 69999999999999999999999999999999999999999999999998 99999999999999999999999999999
Q ss_pred Eec
Q 009379 243 IRH 245 (536)
Q Consensus 243 L~P 245 (536)
|.|
T Consensus 82 l~P 84 (89)
T 1i96_V 82 LAP 84 (89)
T ss_pred EEe
Confidence 944
No 3
>1tig_A IF3-C, translation initiation factor 3; IF3 C-terminal domain, ribosome binding factor; 2.00A {Geobacillus stearothermophilus} SCOP: d.68.1.1
Probab=99.94 E-value=1e-27 Score=205.74 Aligned_cols=84 Identities=29% Similarity=0.521 Sum_probs=81.3
Q ss_pred cceeEEEeecCCcchHHHHHHHHHHHHhcCCeEEEEEEecCCcccchHHHH-HHHHHHHHhhhccccccCcccCCceEEE
Q 009379 163 DCKEVRFSGKIEQKDLQMKADTVKRLMDKGYRVKCMALPVGKKEETEDLGG-YLSRLIDLIEDISVVESGPHVERKQAYA 241 (536)
Q Consensus 163 k~KEIrLs~~IdeHDL~~KlKQakkFLeKG~KVKVtI~fRGRE~~~qElge-lL~RV~e~LeEVg~VE~kPk~EGK~m~m 241 (536)
.+|||+|+|+|++|||++|+++|++||++|++|+|+|+|||||++|.|+|. +|++|.++|+|+|.+|..|++||++|+|
T Consensus 6 ~vKEikl~p~Id~hD~~~K~k~a~~FL~~GdKVKvti~fRGRE~~h~e~g~~lL~r~~~~l~d~~~ve~~pk~eGr~m~m 85 (94)
T 1tig_A 6 NVKEVRLSPTIEEHDFNTKLRNARKFLEKGDKVKATIRFKGRAITHKEIGQRVLDRLSEACADIAVVETAPKMDGRNMFL 85 (94)
T ss_dssp CEEEEEECTTCCHHHHHHHHHHHHHHHHTTCEEEEEEECCSCCTTHHHHHHHHHHHHHHHTTTTEEEEEEEEEETTEEEE
T ss_pred eeEEEEecCCcCcchHHHHHHHHHHHHHCCCEEEEEEEECCccccCHHHHHHHHHHHHHHhhhhhEEecCccccCCEEEE
Confidence 789999999999999999999999999999999999999999999999998 9999999999999999999999999999
Q ss_pred EEecC
Q 009379 242 IIRHV 246 (536)
Q Consensus 242 iL~P~ 246 (536)
+|.|.
T Consensus 86 ~l~Pk 90 (94)
T 1tig_A 86 VLAPK 90 (94)
T ss_dssp EEEES
T ss_pred EEEeC
Confidence 99553
No 4
>1tif_A IF3-N, translation initiation factor 3; IF3 N-terminal domain, ribosome binding factor; 1.80A {Geobacillus stearothermophilus} SCOP: d.15.8.1
Probab=99.94 E-value=3.3e-27 Score=196.87 Aligned_cols=73 Identities=40% Similarity=0.623 Sum_probs=69.9
Q ss_pred CCCCCCCCCCceEEEEeCCCC--ccccHHHHHHHHHhcCCcEEEecCCCCCCeEEEecchhHHHHHHHHHHHHHh
Q 009379 80 GPRLNDKINAQFVRLVLDEGH--KVVSRHEALALARSLQCDLVEVDRKANPPVCKIMDFHKEKYQKELKEKDRAK 152 (536)
Q Consensus 80 ~~riNEeI~a~~VRLIdedG~--GVms~~EAL~lAk~~~LDLVeVsp~a~PPVCKImDYgK~kYEqqKKeKEaKK 152 (536)
.+++|++|++++|||||+||+ |+|+++|||++|++.+||||+|+++++||||||||||||+||++||+||+||
T Consensus 4 ~~~iNe~Ir~~eVrli~~~Ge~lGv~~~~eAl~~A~e~~LDLVevsp~a~PPVCkImDygK~~ye~~Kk~keakk 78 (78)
T 1tif_A 4 DFIINEQIRAREVRLIDQNGDQLGIKSKQEALEIAARRNLDLVLVAPNAKPPVCRIMDYGKFRFEQQKKEKEARK 78 (78)
T ss_dssp CCCBGGGCCCSEEEEECTTSCEEEEEEHHHHHHHHHHTTCEEEEEETTSSSCEEEEECHHHHHHHHHHHHHHTTC
T ss_pred ccccCcccCCCEEEEECCCCcCCCcccHHHHHHHHHHcCCCEEEECCCCCCCEEEEecchhHHHHHHHHHHHhcC
Confidence 489999999999999999996 9999999999999999999999999999999999999999999999998753
No 5
>2crq_A Mitochondrial translational initiation factor 3; ribosome, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=99.94 E-value=2.7e-27 Score=208.84 Aligned_cols=95 Identities=21% Similarity=0.327 Sum_probs=86.8
Q ss_pred HHHhhccccccccccceeEEEeecCCcchHHHHHHHHHHHHhcCCeEEEEEEecCCccc-chHHHH-HHHHHHHHhhhcc
Q 009379 149 DRAKAKSDITLKKGDCKEVRFSGKIEQKDLQMKADTVKRLMDKGYRVKCMALPVGKKEE-TEDLGG-YLSRLIDLIEDIS 226 (536)
Q Consensus 149 EaKKkqkk~~~r~~k~KEIrLs~~IdeHDL~~KlKQakkFLeKG~KVKVtI~fRGRE~~-~qElge-lL~RV~e~LeEVg 226 (536)
|++|+|+.+ .+|||+|+|+|++|||++|+++|++||++||||+|+|+ ||||++ |+|+|. ||++|.++|+|+|
T Consensus 5 eakkkqk~~-----~vKEIrl~p~Id~HDl~~K~k~a~kFLe~GdKVKvti~-RGRE~~~~~e~g~~lL~r~~~~l~dv~ 78 (112)
T 2crq_A 5 SSGPKTGPT-----MTKELVFSSNIGQHDLDTKSKQIQQWIEKKYHVQVTIK-RRKDAEQSEEETEEIFNQILQTMPDIA 78 (112)
T ss_dssp CCCCCCCCS-----CEEEEEEETTCCHHHHHHHHHHHHHHHHTTCEEEEEEE-CCTTCSCCHHHHHHHHHHHHTTSTTTC
T ss_pred hhhcccCCc-----eeEEEEecCCcccchHHHHHHHHHHHHHCCCEEEEEEE-CCccccccHHHHHHHHHHHHHHhhhhh
Confidence 456666554 79999999999999999999999999999999999999 999999 999998 9999999999999
Q ss_pred ccccCcc--cCCceEEEEEecCCCCCCCCC
Q 009379 227 VVESGPH--VERKQAYAIIRHVKFGPSKKG 254 (536)
Q Consensus 227 ~VE~kPk--~EGK~m~miL~P~k~~P~kK~ 254 (536)
.+|..|+ ++|++|+|+| +|++|+
T Consensus 79 ~vE~~Pk~~~eGr~m~mvL-----~Pkkkk 103 (112)
T 2crq_A 79 TFSSRPKAIRGGTASMCVF-----RHLSKK 103 (112)
T ss_dssp EEEEEEEEEGGGTEEEEEE-----ECCSSS
T ss_pred EEeccccccCCCCEEEEEE-----EeCCcc
Confidence 9999999 8999999999 555543
No 6
>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}
Probab=17.20 E-value=1.5e+02 Score=25.31 Aligned_cols=21 Identities=38% Similarity=0.433 Sum_probs=18.5
Q ss_pred cHHHHHHHHHhcCCcEEEecC
Q 009379 104 SRHEALALARSLQCDLVEVDR 124 (536)
Q Consensus 104 s~~EAL~lAk~~~LDLVeVsp 124 (536)
+-+|||+++++...|||.+.-
T Consensus 41 ~g~eAl~~~~~~~~DlvllDi 61 (123)
T 2lpm_A 41 RMQEALDIARKGQFDIAIIDV 61 (123)
T ss_dssp CHHHHHHHHHHCCSSEEEECS
T ss_pred CHHHHHHHHHhCCCCEEEEec
Confidence 578999999999999999963
No 7
>4fhd_A Spore photoproduct lyase; partial TIM-barrel, DNA repair, damaged DNA; HET: EEM 0TT; 2.00A {Geobacillus thermodenitrificans} PDB: 4fhc_A* 4fhg_A* 4fhe_A* 4fhf_A*
Probab=16.55 E-value=2.3e+02 Score=29.20 Aligned_cols=61 Identities=13% Similarity=0.244 Sum_probs=43.6
Q ss_pred eeEEEeecCCcchH-----------HHHHHHHHHHHhcCCeEEEEEEe--cCCcccchHHHHHHHHHHHHhhhcc
Q 009379 165 KEVRFSGKIEQKDL-----------QMKADTVKRLMDKGYRVKCMALP--VGKKEETEDLGGYLSRLIDLIEDIS 226 (536)
Q Consensus 165 KEIrLs~~IdeHDL-----------~~KlKQakkFLeKG~KVKVtI~f--RGRE~~~qElgelL~RV~e~LeEVg 226 (536)
..+.++|.|...|+ ..|++.++++-+.|+.|-|.|.. -+ +...++..++|++|.+.|.+.+
T Consensus 215 ~~v~V~~Sitt~~l~r~~EP~aps~~~RL~Ai~~l~~aGipv~v~iaPIiP~-~~~~e~y~~lle~l~~~l~~~~ 288 (368)
T 4fhd_A 215 GKTRFRFSINSRYVINHFEPGTSSFDGRLAAARKVAGAGYKLGFVVAPIYRH-EGWERGYFELFQELARQLEGMD 288 (368)
T ss_dssp TCEEEEEEECCHHHHHHHCTTSCCHHHHHHHHHHHHHTTCEEEEEEEEECCC-TTHHHHHHHHHHHHHHHTTTSC
T ss_pred CceEEEEEEcCHHHHHHcCCCCCCHHHHHHHHHHHHHCCCeEEEEEeCcCCC-CCCHHHHHHHHHHHHHhhchhh
Confidence 34566666666554 45679999999999999999985 44 2233455668888888776644
No 8
>4fmw_A RNA (guanine-9-)-methyltransferase domain-contain protein 2; structural genomics, structural genomics consortium, SGC, RN modification; HET: SAH; 2.00A {Homo sapiens}
Probab=13.38 E-value=36 Score=32.18 Aligned_cols=25 Identities=24% Similarity=0.382 Sum_probs=22.9
Q ss_pred Ccccccccccchhhhhhhcceeeec
Q 009379 1 MAFSCRTNQSRLKHLTHQFKRYYIQ 25 (536)
Q Consensus 1 ma~~~~~n~~~l~~l~~q~~~~y~q 25 (536)
|+||...+.--++.|+.|+.+||.=
T Consensus 27 ~sf~~~M~~kE~~sl~~Ql~~~y~~ 51 (197)
T 4fmw_A 27 CSFDHLMVLKDIKKLHKQIQRCYAE 51 (197)
T ss_dssp CTTGGGSCHHHHHHHHHHHHHHHHH
T ss_pred CCchHhcCHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999854
No 9
>3gby_A Uncharacterized protein CT1051; CBS domain, structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Chlorobium tepidum tls}
Probab=11.29 E-value=1.8e+02 Score=23.28 Aligned_cols=24 Identities=33% Similarity=0.459 Sum_probs=14.3
Q ss_pred ceEEEEeCCCC--ccccHHHHHHHHH
Q 009379 90 QFVRLVLDEGH--KVVSRHEALALAR 113 (536)
Q Consensus 90 ~~VRLIdedG~--GVms~~EAL~lAk 113 (536)
..+-|||++|. |+++..+.++...
T Consensus 100 ~~lpVvd~~g~~~Giit~~dll~~l~ 125 (128)
T 3gby_A 100 SVVPLADEDGRYEGVVSRKRILGFLA 125 (128)
T ss_dssp SEEEEECTTCBEEEEEEHHHHHHHHH
T ss_pred cEEEEECCCCCEEEEEEHHHHHHHHH
Confidence 34556666664 6666666665543
No 10
>2yzi_A Hypothetical protein PH0107; sheet/helix/sheet/sheet/helix, structural genomics, unknown function, NPPSFA; 2.25A {Pyrococcus horikoshii} SCOP: d.37.1.1
Probab=11.22 E-value=1.3e+02 Score=24.37 Aligned_cols=18 Identities=11% Similarity=0.019 Sum_probs=10.7
Q ss_pred ccHHHHHHHHHhcCCcEE
Q 009379 103 VSRHEALALARSLQCDLV 120 (536)
Q Consensus 103 ms~~EAL~lAk~~~LDLV 120 (536)
.++.+|++++.+.+++.+
T Consensus 89 ~~l~~~~~~m~~~~~~~l 106 (138)
T 2yzi_A 89 TPLGEVLRKMAEHRIKHI 106 (138)
T ss_dssp SBHHHHHHHHHHHTCSEE
T ss_pred CcHHHHHHHHHhcCCCEE
Confidence 456666666666665544
Done!