Query 031207
Match_columns 164
No_of_seqs 112 out of 623
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 10:47:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031207.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031207hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1670 Translation initiation 100.0 4.2E-48 9E-53 314.6 9.9 117 39-159 33-153 (212)
2 PTZ00040 translation initiatio 100.0 4.5E-45 9.8E-50 303.0 11.8 120 38-157 35-175 (233)
3 PF01652 IF4E: Eukaryotic init 100.0 6.4E-44 1.4E-48 280.2 11.7 118 42-160 1-123 (165)
4 KOG1669 Predicted mRNA cap-bin 100.0 2.4E-44 5.3E-49 286.8 8.8 130 32-162 21-151 (208)
5 COG5053 CDC33 Translation init 100.0 3.9E-35 8.5E-40 236.3 8.2 119 39-159 35-158 (217)
6 PF08939 DUF1917: Domain of un 67.8 7.1 0.00015 33.1 3.7 29 118-146 150-178 (243)
7 PF11525 CopK: Copper resistan 57.5 5.3 0.00011 27.9 0.9 20 92-112 11-30 (73)
8 COG3822 ABC-type sugar transpo 37.6 31 0.00068 28.8 2.6 28 99-126 91-124 (225)
9 PHA00689 hypothetical protein 36.4 19 0.00042 23.7 1.0 12 109-124 29-40 (62)
10 PF08977 BOFC_N: Bypass of For 32.3 17 0.00038 23.8 0.3 30 72-104 21-50 (51)
11 COG5417 Uncharacterized small 20.6 57 0.0012 23.2 1.2 30 112-141 10-44 (81)
No 1
>KOG1670 consensus Translation initiation factor 4F, cap-binding subunit (eIF-4E) and related cap-binding proteins [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.2e-48 Score=314.58 Aligned_cols=117 Identities=35% Similarity=0.692 Sum_probs=110.9
Q ss_pred CCCCCCCceEEEEEcCCCCCCCccchHhhcceeeeecchhhHHHhhcCCCCCCCCCCCceeEEeeCCCccccccCCCCCC
Q 031207 39 NLHPLKNKFVFWYTRRTPGVRTQTSYEDNIKKIVDFSTVEGFWVCYCHLARPSLLPSPTDLHLFKEGIRPLWEDSANCNG 118 (164)
Q Consensus 39 ~~h~L~~~WtfW~~~~~~~~~~~~~y~~~l~~I~tf~TVE~FW~~y~~l~~ps~L~~~~~~~lFK~GI~P~WEDp~N~nG 118 (164)
..|||++.|||||..+.. + ..|++.|++|++|+|||+||++|++|++||+|+.+|||+|||+||+||||||+|++|
T Consensus 33 ~~hpL~~~WTlW~l~~d~---~-ksW~d~Lk~v~tF~TVeeFW~Ly~~I~~ps~L~~~sDy~lFk~gI~PmWED~~N~~G 108 (212)
T KOG1670|consen 33 IKHPLQNNWTLWFLKNDR---N-KSWEDMLKEVTTFDTVEEFWSLYNNIKPPSGLNRGSDYSLFKKGIRPMWEDPANKNG 108 (212)
T ss_pred cccccccceeEEeecCCc---c-ccHHHHhhhccccccHHHHHHHHhccCChhhCCccccHHHHhcCCCccccCccccCC
Confidence 589999999999998764 2 389999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEEEEcC---CchHHHHHHHHHHHhcCCC-CCCCeeEEEEEeE
Q 031207 119 GKWIIRFKK---VVSGRFWEDLVRRRLATAS-PPKHICILQQLSI 159 (164)
Q Consensus 119 Gkw~i~~~k---~~~d~~We~lll~~IGe~f-~~d~I~Gvvvs~~ 159 (164)
|||.|.+++ ...|++|.++||+||||+| ++++|||+|+.+|
T Consensus 109 GrW~~~~~k~~k~~lD~~WL~tLlalIGE~fd~~deICGaV~NiR 153 (212)
T KOG1670|consen 109 GRWLITVPKSGKAELDELWLETLLALIGEQFDHSDEICGAVVNIR 153 (212)
T ss_pred CeEEEEecCcchhhHHHHHHHHHHHHHhhhccccccceeEEEEec
Confidence 999999985 4689999999999999999 8999999999998
No 2
>PTZ00040 translation initiation factor E4; Provisional
Probab=100.00 E-value=4.5e-45 Score=303.00 Aligned_cols=120 Identities=28% Similarity=0.584 Sum_probs=108.3
Q ss_pred CCCCCCCCceEEEEEcCCCCCCCccchHhhcceeeeecchhhHHHhhcCCCCCCCCCCCce---------------eEEe
Q 031207 38 ANLHPLKNKFVFWYTRRTPGVRTQTSYEDNIKKIVDFSTVEGFWVCYCHLARPSLLPSPTD---------------LHLF 102 (164)
Q Consensus 38 ~~~h~L~~~WtfW~~~~~~~~~~~~~y~~~l~~I~tf~TVE~FW~~y~~l~~ps~L~~~~~---------------~~lF 102 (164)
..+|||+++|||||+.+..+.....+|+++|++|++|+|||+||++|+||++||+|+.+++ ||||
T Consensus 35 ~~~hpL~~~Wt~W~~~~~~~~~~~~~y~~~lk~I~sF~TVEeFW~~yn~i~~pS~L~~~~~~~r~~~~~~~~~~~~~~lF 114 (233)
T PTZ00040 35 STPLPLSYKWVIWEQVVKETIRKSNDYKDYTKPLASFDSVQKFWQLWFNIPQPSELLTGKRMIRESSDGSEHVVDAVMIF 114 (233)
T ss_pred CCCCcCCCcEEEEEEcCcccCcchhhHHHhceEEeEEccHHHHHHHHhCCCChHHcccccccccccccccccccceeeee
Confidence 5679999999999997654323345899999999999999999999999999999998874 9999
Q ss_pred eCCCccccccCCCCCCceEEEEEcC-----CchHHHHHHHHHHHhcCCC-CCCCeeEEEEE
Q 031207 103 KEGIRPLWEDSANCNGGKWIIRFKK-----VVSGRFWEDLVRRRLATAS-PPKHICILQQL 157 (164)
Q Consensus 103 K~GI~P~WEDp~N~nGGkw~i~~~k-----~~~d~~We~lll~~IGe~f-~~d~I~Gvvvs 157 (164)
|+||+||||||+|++||+|++++++ ..++++|++|||++|||+| ..++||||||+
T Consensus 115 K~GIkP~WEDp~N~~GG~w~~~~~~~~~~~~~~d~~W~~llLa~IGe~~~~~d~I~Gvvv~ 175 (233)
T PTZ00040 115 KDGIQPMWEDPMNATGGHFEYRFWPTDVSPGQIDEYWNNLVLALIGSSLEHSSLINGIRLV 175 (233)
T ss_pred cCCCeECcCCCCcCCCCEEEEEeccccccccHHHHHHHHHHHHHhcCcCCCCcccccEEEe
Confidence 9999999999999999999999965 3589999999999999999 78999999974
No 3
>PF01652 IF4E: Eukaryotic initiation factor 4E; InterPro: IPR001040 Eukaryotic translation initiation factor 4E (eIF-4E) [] is a protein that binds to the cap structure of eukaryotic cellular mRNAs. eIF-4E recognises and binds the 7-methylguanosine-containing (m7Gppp) cap during an early step in the initiation of protein synthesis and facilitates ribosome binding to a mRNA by inducing the unwinding of its secondary structures. A tryptophan in the central part of the sequence of human eIF-4E seems to be implicated in cap-binding [].; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation, 0005737 cytoplasm; PDB: 2JGB_A 2JGC_A 1L8B_A 1EJ1_A 1EJH_A 1EJ4_A 1AP8_A 1RF8_A 2WMC_G 2IDR_B ....
Probab=100.00 E-value=6.4e-44 Score=280.21 Aligned_cols=118 Identities=43% Similarity=0.859 Sum_probs=107.7
Q ss_pred CCCCceEEEEEcCCCCCCCccchHhhcceeeeecchhhHHHhhcCCCCCCCCCCCceeEEeeCCCccccccCCCCCCceE
Q 031207 42 PLKNKFVFWYTRRTPGVRTQTSYEDNIKKIVDFSTVEGFWVCYCHLARPSLLPSPTDLHLFKEGIRPLWEDSANCNGGKW 121 (164)
Q Consensus 42 ~L~~~WtfW~~~~~~~~~~~~~y~~~l~~I~tf~TVE~FW~~y~~l~~ps~L~~~~~~~lFK~GI~P~WEDp~N~nGGkw 121 (164)
||+++|||||+......+ ..+|.++|++|++|+|||+||++|++|++|++|+.+++|+|||+||+||||||+|++||+|
T Consensus 1 pL~~~Wt~w~~~~~~~~~-~~~y~~~l~~i~~f~TvE~Fw~~~~~i~~~s~l~~~~~~~lFk~gI~P~WEDp~N~~GG~~ 79 (165)
T PF01652_consen 1 PLQNKWTFWYDKKQKNSK-SDDYEDSLKPIGTFSTVEEFWSLYNHIPKPSELPKGSNYHLFKKGIKPMWEDPANKNGGRW 79 (165)
T ss_dssp EEEEEEEEEEEECCCCCT-TSCTGGGEEEEEEEEEHHHHHHHHTTSCCGGGS-TTEEEEEEETTC-SSTTSTTTTTSEEE
T ss_pred CcCCEEEEEEEecCCCCc-hhhhhhhceEEEEEEeHHHHHHHhccCCCHHHCCCCcceeeeecccccCCCCccCCCccEE
Confidence 799999999995544333 3599999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCC---chHHHHHHHHHHHhcCCC-CC-CCeeEEEEEeEe
Q 031207 122 IIRFKKV---VSGRFWEDLVRRRLATAS-PP-KHICILQQLSIF 160 (164)
Q Consensus 122 ~i~~~k~---~~d~~We~lll~~IGe~f-~~-d~I~Gvvvs~~~ 160 (164)
+|++++. .++++|++|||++|||+| .. ++|||||+++|.
T Consensus 80 ~i~~~~~~~~~~~~~W~~lll~~IGe~~~~~~~~I~Gi~~s~r~ 123 (165)
T PF01652_consen 80 IIRIKKKNKEQVDEIWENLLLAVIGEQFDEDGDEICGIVLSVRK 123 (165)
T ss_dssp EEEEETTCHHTHHHHHHHHHHHHHTTTSCCGGGGEEEEEEEEES
T ss_pred EEEEcCccchhHHHHHHHHHHHHhhcccccCCCcceEEEEEEec
Confidence 9999998 999999999999999999 33 899999999994
No 4
>KOG1669 consensus Predicted mRNA cap-binding protein related to eIF-4E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.4e-44 Score=286.76 Aligned_cols=130 Identities=50% Similarity=0.904 Sum_probs=123.3
Q ss_pred HhhcccCCCCCCCCceEEEEEcCCCCCCCccchHhhcceeeeecchhhHHHhhcCCCCCCCCCCCceeEEeeCCCccccc
Q 031207 32 QARELKANLHPLKNKFVFWYTRRTPGVRTQTSYEDNIKKIVDFSTVEGFWVCYCHLARPSLLPSPTDLHLFKEGIRPLWE 111 (164)
Q Consensus 32 ~~~~~~~~~h~L~~~WtfW~~~~~~~~~~~~~y~~~l~~I~tf~TVE~FW~~y~~l~~ps~L~~~~~~~lFK~GI~P~WE 111 (164)
.++....+.|||++..+|||..+.++... ++|++.+++|++|.|||+||++|.||++|+.|+..+++||||+||+|+||
T Consensus 21 ~a~v~~d~dh~l~y~~t~~y~~r~~Gv~~-qsYe~~ik~i~t~~SvE~fw~~~~Hlkr~~~m~~~~dih~FKeGIkPvWE 99 (208)
T KOG1669|consen 21 RARVLMDMDHPLQYVYTFWYERRTPGVSK-QSYEKNIKSIGTFESVEQFWYLYHHLKRPDRMDRQFDIHFFKEGIKPVWE 99 (208)
T ss_pred ccccCCCCCCcceEEEEEEEEecCCCCCh-hhHHHHhHhheeeeeHHHHHHHHHHhcCccccCCceeehhhhccCccccc
Confidence 34556677899999999999999988764 59999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCceEEEEEcCCchHHHHHHHHHHHhcCCC-CCCCeeEEEEEeEeee
Q 031207 112 DSANCNGGKWIIRFKKVVSGRFWEDLVRRRLATAS-PPKHICILQQLSIFHK 162 (164)
Q Consensus 112 Dp~N~nGGkw~i~~~k~~~d~~We~lll~~IGe~f-~~d~I~Gvvvs~~~~~ 162 (164)
|++|.|||+|+|+++|+++.++||+||||++||+| .+++|||+|+|+||++
T Consensus 100 D~aN~nGgkWiirlkK~vs~R~wE~LLlal~geqf~~~e~icGaV~svr~ne 151 (208)
T KOG1669|consen 100 DKANCNGGKWIIRLKKGVSQRYWENLLLALCGEQFKVGEEICGAVGSVRFNE 151 (208)
T ss_pred CcCCCCCCeEEEEehHHHHHHHHHHHHHHHHhhhhcccccccceeEEEeccc
Confidence 99999999999999999999999999999999999 8999999999999975
No 5
>COG5053 CDC33 Translation initiation factor 4E (eIF-4E) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.9e-35 Score=236.32 Aligned_cols=119 Identities=32% Similarity=0.603 Sum_probs=109.0
Q ss_pred CCCCCCCceEEEEEcCCCCCCCccchHhhcceeeeecchhhHHHhhcCCCCCCCCCCCceeEEeeCCCccccccCCCCCC
Q 031207 39 NLHPLKNKFVFWYTRRTPGVRTQTSYEDNIKKIVDFSTVEGFWVCYCHLARPSLLPSPTDLHLFKEGIRPLWEDSANCNG 118 (164)
Q Consensus 39 ~~h~L~~~WtfW~~~~~~~~~~~~~y~~~l~~I~tf~TVE~FW~~y~~l~~ps~L~~~~~~~lFK~GI~P~WEDp~N~nG 118 (164)
..|||+..|||||..+... +.+.|.+.|+.|++|+|||+||++.++|+.++.||..++|++||+||+|+|||++|++|
T Consensus 35 ~~hpl~~~wtlw~l~p~e~--g~esw~dlLk~I~tf~Tveefwyi~~~I~~a~~lprksdynvFreGIrPeWEDeaN~~G 112 (217)
T COG5053 35 NKHPLAFHWTLWFLKPPED--GLESWSDLLKSIITFETVEEFWYILHNISDASRLPRKSDYNVFREGIRPEWEDEANMNG 112 (217)
T ss_pred hcCccccceEEEEecCCcc--chhHHHHHHhhheeeecHHHHHHHHhcCCcccccchhhhHHHHHcCCCccccccccCCC
Confidence 4699999999999987642 23459999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEEEEcCC---chHHHHHHHHHHHhcCCC--CCCCeeEEEEEeE
Q 031207 119 GKWIIRFKKV---VSGRFWEDLVRRRLATAS--PPKHICILQQLSI 159 (164)
Q Consensus 119 Gkw~i~~~k~---~~d~~We~lll~~IGe~f--~~d~I~Gvvvs~~ 159 (164)
|+|.+.++.. ..+++|.++||++||++| .+.+|||||+.-|
T Consensus 113 gkws~qlk~~g~d~~dElwl~tlla~igeT~Dp~~~ei~GvV~n~r 158 (217)
T COG5053 113 GKWSFQLKGKGCDRLDELWLRTLLAAIGETLDPTGSEIGGVVGNMR 158 (217)
T ss_pred CeEEEEcccccchhHHHHHHHHHHHHHhhccCCCCCeeccEEEEee
Confidence 9999999876 367899999999999999 5789999998765
No 6
>PF08939 DUF1917: Domain of unknown function (DUF1917); InterPro: IPR015034 This family includes various hypothetical proteins.; PDB: 1ZTP_B 2Q4K_C.
Probab=67.77 E-value=7.1 Score=33.08 Aligned_cols=29 Identities=14% Similarity=0.359 Sum_probs=25.7
Q ss_pred CceEEEEEcCCchHHHHHHHHHHHhcCCC
Q 031207 118 GGKWIIRFKKVVSGRFWEDLVRRRLATAS 146 (164)
Q Consensus 118 GGkw~i~~~k~~~d~~We~lll~~IGe~f 146 (164)
.|||+|-++++.+|++|..+.-+++.+.|
T Consensus 150 sGKWmlf~~~~~vd~~W~~Va~at~~g~L 178 (243)
T PF08939_consen 150 SGKWMLFPPPDRVDEIWSKVAKATADGEL 178 (243)
T ss_dssp -EEEEEEE-TTHHHHHHHHHHHHHHTTSS
T ss_pred cceeEEEcCHHHHHHHHHHHHHHHHcCCc
Confidence 79999999999999999999999998877
No 7
>PF11525 CopK: Copper resistance protein K; InterPro: IPR021604 CopK is a periplasmic dimeric protein which is strongly up-regulated in the presence of copper, leading to a high periplasmic accumulation []. CopK has two different binding sites for Cu(I), each with a different affinity for the metal. Binding of the first Cu(I) ion induces a conformational change of CopK which involves dissociation of the dimeric apo-protein. Binding of a second Cu(I) further increases the plasticity of the protein. CopK has features that are common with functionally related proteins such as a structure consisting of an all-beta fold and a methionine-rich Cu(I) binding site []. ; PDB: 3N7E_B 3N7D_B 3DSP_A 3DSO_A 2K0Q_A 2KM0_A 2LEL_A.
Probab=57.54 E-value=5.3 Score=27.94 Aligned_cols=20 Identities=30% Similarity=0.454 Sum_probs=15.0
Q ss_pred CCCCCceeEEeeCCCcccccc
Q 031207 92 LLPSPTDLHLFKEGIRPLWED 112 (164)
Q Consensus 92 ~L~~~~~~~lFK~GI~P~WED 112 (164)
.|..++++|+||+|=-- =||
T Consensus 11 ~LkDGstvyiFKDGKMa-mEd 30 (73)
T PF11525_consen 11 PLKDGSTVYIFKDGKMA-MED 30 (73)
T ss_dssp EBTTSEEEEEETTS-EE-EEE
T ss_pred ecCCCCEEEEEcCCcee-hhh
Confidence 57889999999999543 355
No 8
>COG3822 ABC-type sugar transport system, auxiliary component [General function prediction only]
Probab=37.56 E-value=31 Score=28.76 Aligned_cols=28 Identities=29% Similarity=0.690 Sum_probs=23.4
Q ss_pred eEEeeCCCccc---c---ccCCCCCCceEEEEEc
Q 031207 99 LHLFKEGIRPL---W---EDSANCNGGKWIIRFK 126 (164)
Q Consensus 99 ~~lFK~GI~P~---W---EDp~N~nGGkw~i~~~ 126 (164)
+++++.-+.|| | ||-.|..||.+++++=
T Consensus 91 M~vr~gQvtPmHrH~~k~eDiinrgggtlv~el~ 124 (225)
T COG3822 91 MHVRPGQVTPMHRHWRKPEDIINRGGGTLVVELW 124 (225)
T ss_pred EEeccCCcCcccccccchhhhhhcCCceEEEEEe
Confidence 56777778887 4 8889999999999974
No 9
>PHA00689 hypothetical protein
Probab=36.41 E-value=19 Score=23.72 Aligned_cols=12 Identities=50% Similarity=1.534 Sum_probs=10.2
Q ss_pred ccccCCCCCCceEEEE
Q 031207 109 LWEDSANCNGGKWIIR 124 (164)
Q Consensus 109 ~WEDp~N~nGGkw~i~ 124 (164)
-||| +||.|++.
T Consensus 29 rwed----dggewvlm 40 (62)
T PHA00689 29 RWED----DGGEWVLM 40 (62)
T ss_pred eeec----CCCcEEEE
Confidence 4998 79999985
No 10
>PF08977 BOFC_N: Bypass of Forespore C, N terminal; InterPro: IPR015071 The N-terminal domain of, bypass of forespore C, is composed of a four-stranded beta-sheet covered by an alpha-helix. The beta-sheet has a beta2-beta1-beta4-beta3 topology, where strands beta1 and beta2 and strands beta3 and beta4 are connected by beta-turns, whereas strands beta2 and beta3 are joined by an alpha-helix that runs across one face of the beta-sheet. This domain is similar to the third immunoglobulin G-binding domain of protein G from Streptococcus, the latter belonging to a large and diverse group of cell surface-associated proteins that bind to immunoglobulins. It has been hypothesised that this domain may be a mediator of protein-protein interactions involved in proteolytic events at the cell surface []. ; PDB: 2BW2_A.
Probab=32.29 E-value=17 Score=23.77 Aligned_cols=30 Identities=20% Similarity=0.352 Sum_probs=20.8
Q ss_pred eeecchhhHHHhhcCCCCCCCCCCCceeEEeeC
Q 031207 72 VDFSTVEGFWVCYCHLARPSLLPSPTDLHLFKE 104 (164)
Q Consensus 72 ~tf~TVE~FW~~y~~l~~ps~L~~~~~~~lFK~ 104 (164)
-++-|.|+||+-|..-..++. .-++.+||+
T Consensus 21 Eti~s~ed~w~~Y~~WqLv~q---~~~~ivFrk 50 (51)
T PF08977_consen 21 ETIWSMEDFWAKYKGWQLVDQ---DDDQIVFRK 50 (51)
T ss_dssp EEEEEHHHHHHHSTTSEEEEE---ETTEEEEEE
T ss_pred eeeccHHHHHHhhcCcEEEEc---cCCEEEEEc
Confidence 488999999999976654332 235666664
No 11
>COG5417 Uncharacterized small protein [Function unknown]
Probab=20.64 E-value=57 Score=23.20 Aligned_cols=30 Identities=30% Similarity=0.493 Sum_probs=22.6
Q ss_pred cCCCCCCceEEEEEcC-----CchHHHHHHHHHHH
Q 031207 112 DSANCNGGKWIIRFKK-----VVSGRFWEDLVRRR 141 (164)
Q Consensus 112 Dp~N~nGGkw~i~~~k-----~~~d~~We~lll~~ 141 (164)
|-.|-+||.|-+|++- .+++.+|+.+=+.+
T Consensus 10 D~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~ 44 (81)
T COG5417 10 DFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISI 44 (81)
T ss_pred EeEecCCceEEEeccccchHHHHHHHHHHHhhccc
Confidence 3456789999999973 47888999776554
Done!