Query 043280
Match_columns 298
No_of_seqs 117 out of 227
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 03:18:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043280.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043280hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01568 A_thal_3678 uncharac 100.0 3.6E-33 7.8E-38 212.9 7.7 66 204-272 1-66 (66)
2 PF04844 Ovate: Transcriptiona 100.0 4.5E-31 9.8E-36 197.5 7.2 59 210-272 1-59 (59)
3 smart00544 MA3 Domain in DAP-5 79.1 3.8 8.1E-05 32.4 4.5 47 217-269 1-47 (113)
4 PF02847 MA3: MA3 domain; Int 53.1 35 0.00077 26.7 5.1 44 217-266 1-44 (113)
5 PF09832 DUF2059: Uncharacteri 32.6 90 0.002 22.6 4.2 28 215-248 3-30 (64)
6 PF04716 ETC_C1_NDUFA5: ETC co 26.4 64 0.0014 24.2 2.5 31 216-246 26-57 (57)
7 PF09177 Syntaxin-6_N: Syntaxi 25.7 2.6E+02 0.0056 22.2 6.0 44 212-267 1-52 (97)
8 PF06761 IcmF-related: Intrace 24.3 2.5E+02 0.0055 26.3 6.6 57 217-274 52-111 (312)
9 PF05400 FliT: Flagellar prote 24.1 98 0.0021 22.7 3.1 17 234-250 7-23 (84)
10 PRK10072 putative transcriptio 23.8 1E+02 0.0022 25.2 3.5 35 210-244 3-42 (96)
11 PF14551 MCM_N: MCM N-terminal 23.3 1.1E+02 0.0025 23.8 3.5 54 217-271 18-74 (121)
12 PF09164 VitD-bind_III: Vitami 21.0 2.1E+02 0.0046 22.8 4.5 35 209-246 6-40 (68)
No 1
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=100.00 E-value=3.6e-33 Score=212.92 Aligned_cols=66 Identities=56% Similarity=0.939 Sum_probs=62.1
Q ss_pred EEEEeeCCCcHHHHHHHHHHHHHHhhhcCCCCChHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHHHhc
Q 043280 204 IAVLKYSPSPYDDFRRSMQEMVEARVQHNAKVDWDFMEELLFCYLNLNEKKSYKFILSAFVDLIGVLRE 272 (298)
Q Consensus 204 vAVvk~S~DPy~DFR~SM~EMI~~~~~~~~i~dw~dLEELL~CYLsLN~~~~H~~Iv~AF~Dl~~~L~~ 272 (298)
|||+|+|.|||.|||+||+|||+++++ ..+|++|||||+|||+||+++||++|++||+|||++|++
T Consensus 1 vAv~k~S~DPy~DFr~SM~EMI~~~~i---~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~dl~~~L~~ 66 (66)
T TIGR01568 1 VAVAKESDDPYEDFRRSMEEMIEEREL---EADWKELEELLACYLDLNPKKSHRFIVRAFVDILSALLS 66 (66)
T ss_pred CeeeeCCCChHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHHhCCchhhhHHHHHHHHHHHHHhC
Confidence 699999999999999999999999862 358999999999999999999999999999999999974
No 2
>PF04844 Ovate: Transcriptional repressor, ovate; InterPro: IPR006458 This group of sequences contain an uncharacterised domain of about 70 residues found exclusively in plants, generally toward the C terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana (Mouse-ear cress). Other regions of these proteins tend to consist largely of low-complexity sequence. Function is not known.
Probab=99.97 E-value=4.5e-31 Score=197.48 Aligned_cols=59 Identities=53% Similarity=0.820 Sum_probs=56.7
Q ss_pred CCCcHHHHHHHHHHHHHHhhhcCCCCChHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHHHhc
Q 043280 210 SPSPYDDFRRSMQEMVEARVQHNAKVDWDFMEELLFCYLNLNEKKSYKFILSAFVDLIGVLRE 272 (298)
Q Consensus 210 S~DPy~DFR~SM~EMI~~~~~~~~i~dw~dLEELL~CYLsLN~~~~H~~Iv~AF~Dl~~~L~~ 272 (298)
|.|||.|||+||+|||++++ +.+|++|||||+|||+||+++||++||+||+|||++|++
T Consensus 1 S~DP~~DFr~SM~EMI~~~~----i~~~~~LeeLL~cYL~LN~~~~H~~Iv~aF~dv~~~l~s 59 (59)
T PF04844_consen 1 SSDPYEDFRESMVEMIEENG----IRDWDDLEELLACYLSLNSPEHHKFIVEAFVDVWVELFS 59 (59)
T ss_pred CCCHHHHHHHHHHHHHHHcC----CCCHHHHHHHHHHHHHhCChhhhhHHHHHHHHHHHHHhC
Confidence 78999999999999999997 779999999999999999999999999999999999974
No 3
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=79.05 E-value=3.8 Score=32.39 Aligned_cols=47 Identities=11% Similarity=0.192 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHhhhcCCCCChHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHH
Q 043280 217 FRRSMQEMVEARVQHNAKVDWDFMEELLFCYLNLNEKKSYKFILSAFVDLIGV 269 (298)
Q Consensus 217 FR~SM~EMI~~~~~~~~i~dw~dLEELL~CYLsLN~~~~H~~Iv~AF~Dl~~~ 269 (298)
||++|...|.+-- .-.+.+|...|.+.||.+.+|+.++...+..+.+
T Consensus 1 ~~k~i~~~l~ey~------~~~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~le 47 (113)
T smart00544 1 LKKKIFLIIEEYL------SSGDTDEAVHCLLELKLPEQHHEVVKVLLTCALE 47 (113)
T ss_pred ChhHHHHHHHHHH------HcCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHc
Confidence 5778888887653 2247789999999999887777777666555443
No 4
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=53.13 E-value=35 Score=26.68 Aligned_cols=44 Identities=9% Similarity=0.178 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhhhcCCCCChHHHHHHHHHHHhcCCCCchhHHHHHHHHH
Q 043280 217 FRRSMQEMVEARVQHNAKVDWDFMEELLFCYLNLNEKKSYKFILSAFVDL 266 (298)
Q Consensus 217 FR~SM~EMI~~~~~~~~i~dw~dLEELL~CYLsLN~~~~H~~Iv~AF~Dl 266 (298)
||+.|...|.+-- .-.+.+|...|-..||.+.+|..++......
T Consensus 1 ~rk~i~~~l~ey~------~~~d~~ea~~~l~el~~~~~~~~vv~~~l~~ 44 (113)
T PF02847_consen 1 LRKKIFSILMEYF------SSGDVDEAVECLKELKLPSQHHEVVKVILEC 44 (113)
T ss_dssp HHHHHHHHHHHHH------HHT-HHHHHHHHHHTT-GGGHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHh------cCCCHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence 6777777777653 1236788888888888777776666554443
No 5
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=32.63 E-value=90 Score=22.60 Aligned_cols=28 Identities=11% Similarity=0.201 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHhhhcCCCCChHHHHHHHHHHH
Q 043280 215 DDFRRSMQEMVEARVQHNAKVDWDFMEELLFCYL 248 (298)
Q Consensus 215 ~DFR~SM~EMI~~~~~~~~i~dw~dLEELL~CYL 248 (298)
.+|+.-|.+....+ .+.++|++|+.+|=
T Consensus 3 ~~~~~~~~~~y~~~------ft~~El~~i~~FY~ 30 (64)
T PF09832_consen 3 EKMIDQMAPIYAEH------FTEEELDAILAFYE 30 (64)
T ss_dssp HHHHHHHHHHHHHH------S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH------CCHHHHHHHHHHHC
Confidence 45666666666644 48899999999994
No 6
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=26.36 E-value=64 Score=24.24 Aligned_cols=31 Identities=16% Similarity=0.351 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhh-hcCCCCChHHHHHHHHH
Q 043280 216 DFRRSMQEMVEARV-QHNAKVDWDFMEELLFC 246 (298)
Q Consensus 216 DFR~SM~EMI~~~~-~~~~i~dw~dLEELL~C 246 (298)
-+|+++++|+..+. +.....|++.+|+.+.|
T Consensus 26 ~YR~~tE~it~~Rl~iv~~~~d~~~iE~~i~c 57 (57)
T PF04716_consen 26 AYRQYTEAITKHRLKIVEEEEDIEKIEKKIGC 57 (57)
T ss_pred HHHHHHHHHHHHHHHHHHccccHHHHHHHhCc
Confidence 58999999998874 22335689999999887
No 7
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=25.72 E-value=2.6e+02 Score=22.18 Aligned_cols=44 Identities=16% Similarity=0.228 Sum_probs=31.1
Q ss_pred CcHHHHHHHHHHHHHHhhhcCCCCChHHHHHHHHHHHhcCCCCc--------hhHHHHHHHHHH
Q 043280 212 SPYDDFRRSMQEMVEARVQHNAKVDWDFMEELLFCYLNLNEKKS--------YKFILSAFVDLI 267 (298)
Q Consensus 212 DPy~DFR~SM~EMI~~~~~~~~i~dw~dLEELL~CYLsLN~~~~--------H~~Iv~AF~Dl~ 267 (298)
|||-.+++-.++.|. .|+.|+.-|+.+..... ..-|..++.+|=
T Consensus 1 DPF~~v~~ev~~sl~------------~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie 52 (97)
T PF09177_consen 1 DPFFVVKDEVQSSLD------------RLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIE 52 (97)
T ss_dssp -HHHHHHHHHHHHHH------------HHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHH------------HHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHH
Confidence 899999998888877 57888988888876544 444555544443
No 8
>PF06761 IcmF-related: Intracellular multiplication and human macrophage-killing; InterPro: IPR009612 This entry represents a conserved region within several bacterial proteins that resemble ImcF, which has been proposed [] to be involved in Vibrio cholerae cell surface reorganisation, resulting in increased adherence to epithelial cells and increased conjugation frequency. Note that many entry members are hypothetical proteins.
Probab=24.31 E-value=2.5e+02 Score=26.34 Aligned_cols=57 Identities=18% Similarity=0.159 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhhhcCCC-CChHHHHHHHHHHHhcCCCCch--hHHHHHHHHHHHHHhcCC
Q 043280 217 FRRSMQEMVEARVQHNAK-VDWDFMEELLFCYLNLNEKKSY--KFILSAFVDLIGVLRENS 274 (298)
Q Consensus 217 FR~SM~EMI~~~~~~~~i-~dw~dLEELL~CYLsLN~~~~H--~~Iv~AF~Dl~~~L~~~~ 274 (298)
|.-.|.+.+++.. .... .+.+.+-|.|.+||.|..++|- .++..-|...|.......
T Consensus 52 llP~l~~~le~~L-~~~~~~~~~~~y~aLk~YLML~~~~~~d~~~l~~w~~~~w~~~~~~~ 111 (312)
T PF06761_consen 52 LLPRLAQRLEQQL-RAAPNDDPDALYEALKAYLMLTDPEHRDADFLKAWLAQDWQEQYPGQ 111 (312)
T ss_pred HHHHHHHHHHHHH-HhhhcccHHHHHHHHHHHHhcCCCccCCHHHHHHHHHHHHHHhCCCC
Confidence 3445556665552 2223 7899999999999999977753 466777777777776544
No 9
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=24.10 E-value=98 Score=22.72 Aligned_cols=17 Identities=41% Similarity=0.511 Sum_probs=12.6
Q ss_pred CCChHHHHHHHHHHHhc
Q 043280 234 KVDWDFMEELLFCYLNL 250 (298)
Q Consensus 234 i~dw~dLEELL~CYLsL 250 (298)
..+|+.|.+|+..|-.|
T Consensus 7 ~~dWe~l~~l~~~R~~l 23 (84)
T PF05400_consen 7 AGDWEELEELLDERQEL 23 (84)
T ss_dssp CT-HHHHHHHHHHHHHH
T ss_pred hCcHHHHHHHHHHHHHH
Confidence 34899999999987643
No 10
>PRK10072 putative transcriptional regulator; Provisional
Probab=23.82 E-value=1e+02 Score=25.18 Aligned_cols=35 Identities=14% Similarity=0.156 Sum_probs=24.3
Q ss_pred CCCcHHHHHHHHHHHHHHhhh-cCCCC----ChHHHHHHH
Q 043280 210 SPSPYDDFRRSMQEMVEARVQ-HNAKV----DWDFMEELL 244 (298)
Q Consensus 210 S~DPy~DFR~SM~EMI~~~~~-~~~i~----dw~dLEELL 244 (298)
=.||..|..+||.|||++++. ...+. ...++.+|.
T Consensus 3 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~eik~LR 42 (96)
T PRK10072 3 YKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLR 42 (96)
T ss_pred cCCHHHHHHHHHHHHHHhcCCccceeecccCChHHHHHHH
Confidence 469999999999999996652 11111 556666663
No 11
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=23.34 E-value=1.1e+02 Score=23.81 Aligned_cols=54 Identities=20% Similarity=0.197 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhhhcCCCCChHHHHH---HHHHHHhcCCCCchhHHHHHHHHHHHHHh
Q 043280 217 FRRSMQEMVEARVQHNAKVDWDFMEE---LLFCYLNLNEKKSYKFILSAFVDLIGVLR 271 (298)
Q Consensus 217 FR~SM~EMI~~~~~~~~i~dw~dLEE---LL~CYLsLN~~~~H~~Iv~AF~Dl~~~L~ 271 (298)
++..+.+|+.... .....+|++|.+ =|+-.|.-|+.++..++-+|..+++..+.
T Consensus 18 Y~~~l~~~~~~~~-~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~a~~~~~~~~~ 74 (121)
T PF14551_consen 18 YMDQLREMIQRNK-KSLYVDLDDLREFDPDLAEALIENPYRYLPLFEEALKEVVKELF 74 (121)
T ss_dssp CHHHHHHHHHHT--SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHHHHHHCHHTT-
T ss_pred HHHHHHHHHHcCC-CEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3566677776543 222468888876 78889999999999999999999998765
No 12
>PF09164 VitD-bind_III: Vitamin D binding protein, domain III; InterPro: IPR015247 This domain is predominantly found in Vitamin D binding proteins, and adopts a multihelical structure. It is required for formation of an actin 'clamp', allowing the protein to bind to actin []. ; PDB: 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A.
Probab=21.03 E-value=2.1e+02 Score=22.80 Aligned_cols=35 Identities=17% Similarity=0.377 Sum_probs=27.5
Q ss_pred eCCCcHHHHHHHHHHHHHHhhhcCCCCChHHHHHHHHH
Q 043280 209 YSPSPYDDFRRSMQEMVEARVQHNAKVDWDFMEELLFC 246 (298)
Q Consensus 209 ~S~DPy~DFR~SM~EMI~~~~~~~~i~dw~dLEELL~C 246 (298)
+|..+|.||++-..|-+.++. . -....+|++|+.-
T Consensus 6 Yse~tFtEyKKrL~e~l~~k~-P--~at~~~l~~lve~ 40 (68)
T PF09164_consen 6 YSENTFTEYKKRLAERLRAKL-P--DATPTELKELVEK 40 (68)
T ss_dssp TTTS-HHHHHHHHHHHHHHH--T--TS-HHHHHHHHHH
T ss_pred hhhccHHHHHHHHHHHHHHHC-C--CCCHHHHHHHHHH
Confidence 689999999999999999884 2 4588999999863
Done!