Query 038388
Match_columns 88
No_of_seqs 16 out of 18
Neff 1.9
Searched_HMMs 46136
Date Fri Mar 29 10:29:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038388.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038388hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07504 FTP: Fungalysin/Therm 30.5 7.9 0.00017 22.1 -1.4 28 32-64 6-33 (51)
2 PF14013 MT0933_antitox: MT093 21.4 41 0.0009 20.4 0.5 15 40-54 37-51 (51)
3 KOG4235 Mitochondrial thymidin 19.2 28 0.0006 28.0 -0.7 21 27-47 169-189 (244)
4 PF08077 Cm_res_leader: Chlora 18.6 57 0.0012 16.8 0.6 8 1-8 1-8 (17)
5 COG2326 Uncharacterized conser 16.2 54 0.0012 26.5 0.3 11 50-60 82-92 (270)
6 TIGR02570 cas_GSU0053 CRISPR-a 13.8 1E+02 0.0023 23.3 1.2 26 49-84 9-34 (174)
7 TIGR02530 flg_new flagellar op 12.6 1.1E+02 0.0024 21.2 1.0 24 34-57 24-52 (96)
8 PF05819 NolX: NolX protein; 11.9 79 0.0017 28.4 0.1 23 31-53 97-119 (624)
9 PF10418 DHODB_Fe-S_bind: Iron 10.1 1.2E+02 0.0025 17.5 0.4 9 55-63 29-37 (40)
10 PF06737 Transglycosylas: Tran 9.4 93 0.002 20.8 -0.3 26 12-37 32-58 (77)
No 1
>PF07504 FTP: Fungalysin/Thermolysin Propeptide Motif; InterPro: IPR011096 The FTP domain is found in the propeptide region of bacterial and fungal metallopeptidases belonging to MEROPS peptidase families M4 and M36 respectively. In bacteria the FTP domain is N-terminal to this entry, the PepSY domain; in fungi the M36 peptidases do not contain the PepSY domain. Propeptide swapping experiments have shown that the propeptides of the M4 and M36 families are not functionally interchangeable []. The function of the propeptide in M36 peptidases has not been described, but it is likely, as in other related peptidases, to have targeting, chaperone activity and to inhibit peptidase activity, so as to prevent premature activation [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding; PDB: 3NQY_A 3NQZ_A.
Probab=30.53 E-value=7.9 Score=22.12 Aligned_cols=28 Identities=25% Similarity=0.392 Sum_probs=17.4
Q ss_pred CcccccCCcchhhhhhhhhhhhcCCCccccccc
Q 038388 32 HSREDERGIQIDKLQDKVEDAAGRGGPVFGAAA 64 (88)
Q Consensus 32 rSrEDe~gI~v~k~qDKV~dAAG~GgpvFGa~~ 64 (88)
++..|..|...-++|..+ +|.||||+.-
T Consensus 6 ~~~~d~~G~~~vr~qQ~~-----~GvpV~g~~~ 33 (51)
T PF07504_consen 6 SVTTDKNGKTHVRYQQYY-----NGVPVYGGEL 33 (51)
T ss_dssp EEEE-TTSEEEEEEEEEE-----TTEEB-S--E
T ss_pred EEEECCCCCEEEEEEEEE-----CCEEEeCCEE
Confidence 345567787888888766 4789999863
No 2
>PF14013 MT0933_antitox: MT0933-like antitoxin protein
Probab=21.41 E-value=41 Score=20.39 Aligned_cols=15 Identities=67% Similarity=0.756 Sum_probs=10.5
Q ss_pred cchhhhhhhhhhhhc
Q 038388 40 IQIDKLQDKVEDAAG 54 (88)
Q Consensus 40 I~v~k~qDKV~dAAG 54 (88)
=+|++.+|++.++.|
T Consensus 37 dqId~~~d~a~~~lg 51 (51)
T PF14013_consen 37 DQIDKAQDKAKDALG 51 (51)
T ss_pred HHHHHHHHHHHhhcC
Confidence 467778887777654
No 3
>KOG4235 consensus Mitochondrial thymidine kinase 2/deoxyguanosine kinase [Nucleotide transport and metabolism]
Probab=19.23 E-value=28 Score=28.02 Aligned_cols=21 Identities=38% Similarity=0.646 Sum_probs=19.2
Q ss_pred CccccCcccccCCcchhhhhh
Q 038388 27 PRTDLHSREDERGIQIDKLQD 47 (88)
Q Consensus 27 ~rtdlrSrEDe~gI~v~k~qD 47 (88)
.|.-+|.||.|+||+.+-||+
T Consensus 169 ~Ri~~R~R~EE~gipL~YLe~ 189 (244)
T KOG4235|consen 169 KRIYLRAREEEKGIPLKYLEA 189 (244)
T ss_pred HHHHHHhhhhhcCCcHHHHHH
Confidence 388899999999999999987
No 4
>PF08077 Cm_res_leader: Chloramphenicol resistance gene leader peptide; InterPro: IPR012537 This family consists of chloramphenicol (Cm) resistance gene leader peptides. Inducible resistance to Cm in both Gram-positive and Gram-negative bacteria is controlled by translation attenuation. In translation attenuation, the ribosome-binding-site (RBS) for the resistance determinant is sequestered in a secondary structure domain within the mRNA. Preceding the secondary structure is a short, translated ORF termed the leader. Ribosome stalling in the leader causes the destabilisation of the downstream secondary structure, allowing initiation of translation of the Cm resistance gene [].
Probab=18.58 E-value=57 Score=16.82 Aligned_cols=8 Identities=63% Similarity=0.850 Sum_probs=6.2
Q ss_pred CCCCCCCC
Q 038388 1 MSGAQGAQ 8 (88)
Q Consensus 1 MSGAQGAq 8 (88)
|||-.||.
T Consensus 1 msgvpgal 8 (17)
T PF08077_consen 1 MSGVPGAL 8 (17)
T ss_pred CCCCCceE
Confidence 88888775
No 5
>COG2326 Uncharacterized conserved protein [Function unknown]
Probab=16.22 E-value=54 Score=26.55 Aligned_cols=11 Identities=55% Similarity=0.984 Sum_probs=8.6
Q ss_pred hhhhcCCCccc
Q 038388 50 EDAAGRGGPVF 60 (88)
Q Consensus 50 ~dAAG~GgpvF 60 (88)
.|||||||-++
T Consensus 82 rDAAGKgG~Ik 92 (270)
T COG2326 82 RDAAGKGGAIK 92 (270)
T ss_pred ccccCCCchhH
Confidence 48999999544
No 6
>TIGR02570 cas_GSU0053 CRISPR-associated protein, GSU0053 family, N-terminal domain. Members of this family are found in association with CRISPR repeats and other CRISPR-associated (cas) genes in the genomes of Geobacter sulfurreducens PCA and Desulfotalea psychrophila LSv54 (both Desulfobacterales from the Deltaproteobacteria), Gemmata obscuriglobus (Planctomycete), and Actinomyces naeslundii MG1 (Actinobacteria).
Probab=13.79 E-value=1e+02 Score=23.27 Aligned_cols=26 Identities=31% Similarity=0.451 Sum_probs=18.6
Q ss_pred hhhhhcCCCccccccccccCchhHhhhhccCCCCcc
Q 038388 49 VEDAAGRGGPVFGAAATGIDDNNQQQQQKKKPDLGV 84 (88)
Q Consensus 49 V~dAAG~GgpvFGa~~~~~~~~~~~~~~~~k~DlGv 84 (88)
..-+.|.++|||++.- ++.+.+|||.
T Consensus 9 l~p~~g~~~~v~p~~F----------~ptgfpd~g~ 34 (174)
T TIGR02570 9 LMPVEGADGVLFPATF----------APTGFPDLGY 34 (174)
T ss_pred cccccCCCCcccCCcc----------cCCCCCCcee
Confidence 3457899999999984 2346677764
No 7
>TIGR02530 flg_new flagellar operon protein. Members of this family are found in a subset of bacterial flagellar operons, generally between genes designated flgD and flgE, in species as diverse as Bacillus halodurans and various other Firmicutes, Geobacter sulfurreducens, and Bdellovibrio bacteriovorus. The specific molecular function is unknown.
Probab=12.55 E-value=1.1e+02 Score=21.22 Aligned_cols=24 Identities=42% Similarity=0.562 Sum_probs=19.3
Q ss_pred ccccCCcc-----hhhhhhhhhhhhcCCC
Q 038388 34 REDERGIQ-----IDKLQDKVEDAAGRGG 57 (88)
Q Consensus 34 rEDe~gI~-----v~k~qDKV~dAAG~Gg 57 (88)
|=.++||. ..+++++|+.|+.||.
T Consensus 24 RL~~R~I~l~~~~~~~i~~av~~A~~KG~ 52 (96)
T TIGR02530 24 RMRERNISINPDDWKKLLEAVEEAESKGV 52 (96)
T ss_pred HHHHcCCCCCHHHHHHHHHHHHHHHhcCC
Confidence 44577885 5688999999999997
No 8
>PF05819 NolX: NolX protein; InterPro: IPR008718 This family consists of Rhizobium NolX and Xanthomonas HrpF proteins. The interaction between the plant pathogen Xanthomonas campestris pv. vesicatoria (strain 85-10) and its host plants is controlled by hrp genes (hypersensitive reaction and pathogenicity), which encode a type III protein secretion system. Among type III-secreted proteins are avirulence proteins, effectors involved in the induction of plant defence reactions. HrpF is dispensable for protein secretion but required for AvrBs3 recognition in planta, is thought to function as a translocator of effector proteins into the host cell []. NolX, a Glycine max (Soybean) cultivar specificity protein, is secreted by a type III secretion system (TTSS) and shows homology to HrpF. It is not known whether NolX functions at the bacterium-plant interface or acts inside the host cell. NolX is expressed in planta only during the early stages of nodule development [].; GO: 0009877 nodulation
Probab=11.86 E-value=79 Score=28.40 Aligned_cols=23 Identities=35% Similarity=0.645 Sum_probs=19.8
Q ss_pred cCcccccCCcchhhhhhhhhhhh
Q 038388 31 LHSREDERGIQIDKLQDKVEDAA 53 (88)
Q Consensus 31 lrSrEDe~gI~v~k~qDKV~dAA 53 (88)
|....|.++|..++|+||++|+.
T Consensus 97 Ln~~~d~~~l~f~~L~~kiNdp~ 119 (624)
T PF05819_consen 97 LNLHKDKGPLEFDKLDDKINDPS 119 (624)
T ss_pred HHhhhhccCcchhhHHhhccCCC
Confidence 45678999999999999999863
No 9
>PF10418 DHODB_Fe-S_bind: Iron-sulfur cluster binding domain of dihydroorotate dehydrogenase B; InterPro: IPR019480 Lactococcus lactis is one of the few organisms with two dihydroorotate dehydrogenases (DHODs) A and B []. The B enzyme is typical of DHODs in Gram-positive bacteria that use NAD+ as the second substrate. DHODB is a heterotetramer composed of a central homodimer of PyrDB subunits resembling the DHODA structure and two PyrK subunits along with three different cofactors: FMN, FAD, and a [2Fe-2S] cluster. The [2Fe-2S] iron-sulphur cluster binds to this C-terminal domain of the PyrK subunit, which is at the interface between the flavin and NAD binding domains and contains three beta-strands. The four cysteine residues at the N-terminal part of this domain are the ones that bind, in pairs, to the iron-sulphur cluster. The conformation of the whole molecule means that the iron-sulphur cluster is localized in a well-ordered part of this domain close to the FAD binding site []. The FAD and NAD binding domains are IPR008333 from INTERPRO and IPR001433 from INTERPRO respectively. ; PDB: 1EP2_B 1EP3_B 1EP1_B.
Probab=10.12 E-value=1.2e+02 Score=17.52 Aligned_cols=9 Identities=56% Similarity=1.095 Sum_probs=6.2
Q ss_pred CCCcccccc
Q 038388 55 RGGPVFGAA 63 (88)
Q Consensus 55 ~GgpvFGa~ 63 (88)
+-||||-+.
T Consensus 29 ~dGPVF~~~ 37 (40)
T PF10418_consen 29 KDGPVFDAD 37 (40)
T ss_dssp TT-BEEBTT
T ss_pred CcCCcCcHH
Confidence 458999876
No 10
>PF06737 Transglycosylas: Transglycosylase-like domain; InterPro: IPR010618 This family of proteins is very likely to act as transglycosylase enzymes related to IPR001916 from INTERPRO and IPR008258 from INTERPRO. These other families are weakly matched by this family, and include the known active site residues.; GO: 0005576 extracellular region; PDB: 1XSF_A 3EO5_A.
Probab=9.36 E-value=93 Score=20.78 Aligned_cols=26 Identities=23% Similarity=0.358 Sum_probs=20.2
Q ss_pred CcccceeeccCC-CCCCccccCccccc
Q 038388 12 SRTATTYESVPQ-DHNPRTDLHSREDE 37 (88)
Q Consensus 12 s~TaTTYeSv~~-~~~~rtdlrSrEDe 37 (88)
+|++.|..++++ .-.++-++-|++.|
T Consensus 32 Qf~~sTW~a~Gg~~yap~~~~As~~eQ 58 (77)
T PF06737_consen 32 QFSQSTWRAYGGSGYAPRPDQASRAEQ 58 (77)
T ss_dssp TBBHHHHHHTTGGGT-SSCCCS-HHHH
T ss_pred ccCHHHHHHhCCCcCCCChhhCCHHHH
Confidence 789999999966 46889999999876
Done!