Query psy17732
Match_columns 186
No_of_seqs 21 out of 23
Neff 2.5
Searched_HMMs 46136
Date Fri Aug 16 21:33:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17732.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17732hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13794 MiaE_2: tRNA-(MS[2]IO 35.8 21 0.00046 30.4 1.5 19 121-139 85-103 (185)
2 PF12112 DUF3579: Protein of u 29.4 29 0.00062 26.9 1.1 15 118-132 18-32 (92)
3 COG5373 Predicted membrane pro 29.2 55 0.0012 34.2 3.3 12 27-38 78-89 (931)
4 PF08127 Propeptide_C1: Peptid 26.2 41 0.00088 22.2 1.2 13 101-113 3-15 (41)
5 PRK10811 rne ribonuclease E; R 24.8 73 0.0016 33.9 3.3 24 58-86 1020-1043(1068)
6 PF06459 RR_TM4-6: Ryanodine R 23.6 57 0.0012 29.1 2.0 27 158-184 158-184 (274)
7 TIGR02220 phg_TIGR02220 phage 18.6 59 0.0013 24.1 0.9 13 100-112 1-13 (77)
8 TIGR03224 benzo_boxA benzoyl-C 17.4 76 0.0016 28.9 1.6 29 2-30 65-93 (411)
9 PF13625 Helicase_C_3: Helicas 15.7 2.8E+02 0.0061 20.9 4.1 55 101-161 58-115 (129)
10 PF14088 DUF4268: Domain of un 13.7 1.2E+02 0.0027 23.1 1.6 30 96-126 3-32 (140)
No 1
>PF13794 MiaE_2: tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; PDB: 3EZ0_C.
Probab=35.83 E-value=21 Score=30.44 Aligned_cols=19 Identities=32% Similarity=0.660 Sum_probs=14.9
Q ss_pred CcccHHHHHHhhhhcCCcc
Q psy17732 121 RPQTWAERALRTYTKDWPD 139 (186)
Q Consensus 121 rPQtWAERaLRTy~~~~~~ 139 (186)
+|.+|.|+++++|--.+..
T Consensus 85 ~P~dW~E~LvKaYVg~gla 103 (185)
T PF13794_consen 85 RPSDWLESLVKAYVGDGLA 103 (185)
T ss_dssp --SSHHHHHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHHHhHH
Confidence 6789999999999877655
No 2
>PF12112 DUF3579: Protein of unknown function (DUF3579); InterPro: IPR021969 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 98 to 126 amino acids in length. This protein has a conserved FRP sequence motif. ; PDB: 2L9D_A.
Probab=29.44 E-value=29 Score=26.94 Aligned_cols=15 Identities=40% Similarity=0.663 Sum_probs=9.7
Q ss_pred CCCCcccHHHHHHhh
Q psy17732 118 ELPRPQTWAERALRT 132 (186)
Q Consensus 118 eiPrPQtWAERaLRT 132 (186)
..=||-.||||+--.
T Consensus 18 k~FRPSDWaERL~gv 32 (92)
T PF12112_consen 18 KTFRPSDWAERLCGV 32 (92)
T ss_dssp -B-S-TTHHHHHHHT
T ss_pred CCcCCccHHHHHHHH
Confidence 345899999998653
No 3
>COG5373 Predicted membrane protein [Function unknown]
Probab=29.23 E-value=55 Score=34.22 Aligned_cols=12 Identities=17% Similarity=0.171 Sum_probs=5.6
Q ss_pred CCCCcccccccC
Q psy17732 27 SLPPKQLRVLAG 38 (186)
Q Consensus 27 ~~~~~~~~v~eg 38 (186)
++|+.++++.|+
T Consensus 78 ~~p~~~~~~~e~ 89 (931)
T COG5373 78 PPPVPPAPAQEG 89 (931)
T ss_pred CCCCCCCCCCCC
Confidence 334444555554
No 4
>PF08127 Propeptide_C1: Peptidase family C1 propeptide; InterPro: IPR012599 This domain is found at the N-terminal of cathepsin B and cathepsin B-like peptidases that belong to MEROPS peptidase subfamily C1A. Cathepsin B are lysosomal cysteine proteinases belonging to the papain superfamily and are unique in their ability to act as both an endo- and an exopeptidases. They are synthesized as inactive zymogens. Activation of the peptidases occurs with the removal of the propeptide [, ]. ; GO: 0004197 cysteine-type endopeptidase activity, 0050790 regulation of catalytic activity; PDB: 1MIR_A 1PBH_A 2PBH_A 3PBH_A.
Probab=26.16 E-value=41 Score=22.18 Aligned_cols=13 Identities=46% Similarity=0.807 Sum_probs=10.0
Q ss_pred hhHHHhhhhccCC
Q psy17732 101 DDVIHYLNSKSQG 113 (186)
Q Consensus 101 DDvIdYLDrR~kG 113 (186)
|++|+|+|+.+.+
T Consensus 3 de~I~~IN~~~~t 15 (41)
T PF08127_consen 3 DEFIDYINSKNTT 15 (41)
T ss_dssp HHHHHHHHHCT-S
T ss_pred HHHHHHHHcCCCc
Confidence 7899999997543
No 5
>PRK10811 rne ribonuclease E; Reviewed
Probab=24.85 E-value=73 Score=33.87 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=16.6
Q ss_pred ccccccCCCCCccccccccccccccCCcc
Q psy17732 58 DSEIQALHFPKKRDIKKTREFHHWVRPTR 86 (186)
Q Consensus 58 ~~~i~p~~~~~~~~~~k~~v~kHWvRP~f 86 (186)
--+.++|.| .....+..+|+||.|
T Consensus 1020 mtkapap~~-----~~~~~~~~~w~rP~~ 1043 (1068)
T PRK10811 1020 MTRAPAPEY-----VPEAPRHSDWQRPTF 1043 (1068)
T ss_pred ccCCCCccc-----cccccccccccCccc
Confidence 345555555 455667899999987
No 6
>PF06459 RR_TM4-6: Ryanodine Receptor TM 4-6; InterPro: IPR009460 The release of Ca2+ ions from intracellular stores is a key step in a wide variety of cellular functions. In striated muscle, the release of Ca2+ from the sarcoplasmic reticulum (SR) leads to muscle contraction. Ca2+ release occurs through large, high-conductance Ca2+ release channels, also known as ryanodine receptors (RyRs) because they bind the plant alkaloid ryanodine with high affinity and specificity []. This region covers TM regions 4-6 of the ryanodine receptor 1 family.; GO: 0005219 ryanodine-sensitive calcium-release channel activity, 0006874 cellular calcium ion homeostasis, 0016021 integral to membrane
Probab=23.58 E-value=57 Score=29.12 Aligned_cols=27 Identities=22% Similarity=0.573 Sum_probs=22.7
Q ss_pred hcccchhhhhHHHHHHHhHHHHHHhhh
Q psy17732 158 FSGKFYAQHSKEFYNRKYRDVLYAYIT 184 (186)
Q Consensus 158 ~~~k~y~~HtK~Y~~~KY~~iL~~~~~ 184 (186)
...++-||-.|+|||.||--+..|++.
T Consensus 158 y~~k~lnylARNFYNlr~lALflAFaI 184 (274)
T PF06459_consen 158 YRTKFLNYLARNFYNLRFLALFLAFAI 184 (274)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345788899999999999999888764
No 7
>TIGR02220 phg_TIGR02220 phage conserved hypothetical protein, C-terminal domain. This model represents the conserved C-terminal domain of a family of proteins found exclusively in bacteriophage and in bacterial prophage regions. The functions of this domain and the proteins containing it are unknown.
Probab=18.57 E-value=59 Score=24.15 Aligned_cols=13 Identities=46% Similarity=0.963 Sum_probs=10.7
Q ss_pred hhhHHHhhhhccC
Q psy17732 100 YDDVIHYLNSKSQ 112 (186)
Q Consensus 100 YDDvIdYLDrR~k 112 (186)
|..+|||||+++-
T Consensus 1 ~~eii~yLN~ktg 13 (77)
T TIGR02220 1 YKEIIEYLNEKAG 13 (77)
T ss_pred ChHHHHHHHHhcC
Confidence 5689999999873
No 8
>TIGR03224 benzo_boxA benzoyl-CoA oxygenase/reductase, BoxA protein. Members of this protein family are BoxA, the A component of the BoxAB benzoyl-CoA oxygenase/reductase. This oxygen-requiring enzyme acts in an aerobic pathway of benzoate catabolism via coenzyme A ligation. BoxA is a homodimeric iron-sulphur-flavoprotein and acts as an NADPH-dependent reductase for BoxB.
Probab=17.42 E-value=76 Score=28.89 Aligned_cols=29 Identities=10% Similarity=0.321 Sum_probs=20.6
Q ss_pred ccccccCCCCCCcchhhcccccccCCCCC
Q psy17732 2 IRKWADDGGFSWDDVEAIEEPKAQRSLPP 30 (186)
Q Consensus 2 ~~~~~d~~~~~Wddv~~iEep~~~~~~~~ 30 (186)
.+.|+-++.+.||.+-+..+|+.+...|+
T Consensus 65 ~~~~tv~e~~~~~~~~~~~~~~~~~~~~~ 93 (411)
T TIGR03224 65 AKAYSLEEQLTWDELPEEVTLPEAAAEPA 93 (411)
T ss_pred cccccHHheeccccCCCcCChhhhhhCCc
Confidence 35677788999998888777765554443
No 9
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=15.68 E-value=2.8e+02 Score=20.90 Aligned_cols=55 Identities=18% Similarity=0.105 Sum_probs=34.7
Q ss_pred hhHHHhhhhccCCCCCCCCCCcccHHHHHHhhhhcCCcccccc---ccchhhHHHHHHHhhccc
Q psy17732 101 DDVIHYLNSKSQGGHVTELPRPQTWAERALRTYTKDWPDTATY---EKTKADEELLQKLRFSGK 161 (186)
Q Consensus 101 DDvIdYLDrR~kG~~~~eiPrPQtWAERaLRTy~~~~~~~~~~---~~k~~D~kLl~~i~~~~k 161 (186)
+++|++|.+.+++- .||+=..-+-....+-+...... +-...|.++|..|.....
T Consensus 58 e~i~~~L~~~S~~~------lP~~v~~~i~~w~~~~g~v~l~~~~~~l~~~d~~~l~~l~~~~~ 115 (129)
T PF13625_consen 58 EEIIEFLERYSKNP------LPQNVEQSIEDWARRYGRVRLYKGAYLLECDDPELLDELLADPE 115 (129)
T ss_pred HHHHHHHHHHcCCC------CCHHHHHHHHHHHHhcCCEEEecCeEEEEECCHHHHHHHHhChh
Confidence 78999999999664 46665544444444333333322 226889999988865543
No 10
>PF14088 DUF4268: Domain of unknown function (DUF4268)
Probab=13.71 E-value=1.2e+02 Score=23.12 Aligned_cols=30 Identities=20% Similarity=0.523 Sum_probs=26.2
Q ss_pred cccchhhHHHhhhhccCCCCCCCCCCcccHH
Q psy17732 96 AHNYYDDVIHYLNSKSQGGHVTELPRPQTWA 126 (186)
Q Consensus 96 r~NYYDDvIdYLDrR~kG~~~~eiPrPQtWA 126 (186)
|..|.-.+.+|+..+..++ ..--|+|+.|-
T Consensus 3 r~~FWt~f~~~~~~~~~~~-~~~~p~~~~W~ 32 (140)
T PF14088_consen 3 RLEFWTEFLEYLKEKPPLF-SNRKPSPDHWI 32 (140)
T ss_pred HHHHHHHHHHHHHhccccc-ccCCCCCCcce
Confidence 5678889999999999777 89999999994
Done!