Query psy4736
Match_columns 98
No_of_seqs 118 out of 843
Neff 7.2
Searched_HMMs 46136
Date Sat Aug 17 00:41:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4736.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4736hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3595|consensus 99.5 1.1E-14 2.3E-19 125.2 6.6 86 7-98 1288-1373(1395)
2 COG5245 DYN1 Dynein, heavy cha 95.7 0.036 7.7E-07 50.2 6.7 74 8-83 2665-2738(3164)
3 KOG0449|consensus 43.1 11 0.00023 26.3 0.6 55 2-80 18-72 (168)
4 PF05008 V-SNARE: Vesicle tran 35.2 93 0.002 18.0 3.9 36 14-50 23-58 (79)
5 PF08579 RPM2: Mitochondrial r 28.7 1.7E+02 0.0037 19.3 4.5 64 21-96 15-87 (120)
6 CHL00200 trpA tryptophan synth 26.5 46 0.00099 24.5 1.7 23 58-80 96-118 (263)
7 PF09111 SLIDE: SLIDE; InterP 25.6 84 0.0018 20.4 2.7 37 51-97 73-109 (118)
8 PF12486 DUF3702: ImpA domain 25.5 1.6E+02 0.0035 19.9 4.1 72 21-97 64-139 (148)
9 PF08285 DPM3: Dolichol-phosph 25.1 52 0.0011 20.5 1.5 18 26-43 68-85 (91)
10 PF12352 V-SNARE_C: Snare regi 22.0 1.5E+02 0.0033 16.5 3.0 25 25-49 21-45 (66)
11 PF14684 Tricorn_C1: Tricorn p 21.6 91 0.002 18.0 2.0 27 34-60 28-57 (70)
12 PF08946 Osmo_CC: Osmosensory 21.1 1.2E+02 0.0026 16.6 2.3 21 20-40 16-36 (46)
No 1
>KOG3595|consensus
Probab=99.54 E-value=1.1e-14 Score=125.15 Aligned_cols=86 Identities=43% Similarity=0.718 Sum_probs=79.6
Q ss_pred chhhHhhhhhhHHhHHHHhhchHHHHHHHHHHhccchhhhhhhhHHHHHHHHhhccChhhhhcHHHHHHHHHHHhhcCCC
Q psy4736 7 GRFSRHRSTAGRLCVDTHTGGPSRTEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQYSLNWFINLYVQSIEGSEK 86 (98)
Q Consensus 7 ~~~~~~k~~a~~~~I~~kl~ea~~~~~~I~~~r~~Y~~vA~~~s~lff~i~~L~~l~~~YqfSL~~Fi~lF~~~l~~~~~ 86 (98)
..+..+|.++. |.+++++++.++.+++.+|..|+|+|.+++.+||.+++|+.++||||||++||+.+|..++..
T Consensus 1288 ~~l~~~K~~~~---i~~k~~e~~~~e~~i~~~r~~y~p~a~~~~~l~~~~~~l~~i~~myq~sl~~f~~~f~~~~~~--- 1361 (1395)
T KOG3595|consen 1288 VTLESSKVEAA---IKEKLEEAEETEKEIDAAREQYRPLAIHSSILYFSISDLANIHPMYQYSLKWFLNLFHVVIER--- 1361 (1395)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhhHHHHhHhhhheehhhccccChHHHHHHHHHHHHHHHHHhc---
Confidence 35667777777 999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cccHHHHHhhcC
Q psy4736 87 TDQLDKRLKILR 98 (98)
Q Consensus 87 ~~~~~~Rl~~l~ 98 (98)
.++..+|+.+|+
T Consensus 1362 ~~~~~~r~~~l~ 1373 (1395)
T KOG3595|consen 1362 SESLSKRLANLI 1373 (1395)
T ss_pred cccHHHHHHHHH
Confidence 778889998863
No 2
>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]
Probab=95.73 E-value=0.036 Score=50.20 Aligned_cols=74 Identities=12% Similarity=0.073 Sum_probs=69.6
Q ss_pred hhhHhhhhhhHHhHHHHhhchHHHHHHHHHHhccchhhhhhhhHHHHHHHHhhccChhhhhcHHHHHHHHHHHhhc
Q psy4736 8 RFSRHRSTAGRLCVDTHTGGPSRTEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQYSLNWFINLYVQSIEG 83 (98)
Q Consensus 8 ~~~~~k~~a~~~~I~~kl~ea~~~~~~I~~~r~~Y~~vA~~~s~lff~i~~L~~l~~~YqfSL~~Fi~lF~~~l~~ 83 (98)
.|+.+|+++. +|+++..|+++...+||...+.|....++--.++-.++.+...+-||.+|..+|..-|.+....
T Consensus 2665 ll~NlKk~~~--~Ie~~~sEs~ei~~riD~L~~eY~~svk~~~sI~v~~~~F~~~~~~y~~si~~~~s~f~k~~~~ 2738 (3164)
T COG5245 2665 LLHNLKKSRK--EIEEEESESMEIEDRIDALKSEYNASVKRLESIRVEIAMFDEKALMYNKSICELSSEFEKWRRM 2738 (3164)
T ss_pred HHHhHHHHHH--HHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence 5788999999 4999999999999999999999999999999999999999999999999999999999988765
No 3
>KOG0449|consensus
Probab=43.11 E-value=11 Score=26.35 Aligned_cols=55 Identities=20% Similarity=0.318 Sum_probs=35.0
Q ss_pred cchhhchhhHhhhhhhHHhHHHHhhchHHHHHHHHHHhccchhhhhhhhHHHHHHHHhhccChhhhhcHHHHHHHHHHH
Q psy4736 2 LSRQCGRFSRHRSTAGRLCVDTHTGGPSRTEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQYSLNWFINLYVQS 80 (98)
Q Consensus 2 ~~~~~~~~~~~k~~a~~~~I~~kl~ea~~~~~~I~~~r~~Y~~vA~~~s~lff~i~~L~~l~~~YqfSL~~Fi~lF~~~ 80 (98)
+++.|||--.+++.... ++.++ ..+.....-||++=+-+ .||..|.|++.+|++.
T Consensus 18 ~s~~~~~s~vt~s~~~~-~~~e~---------~~~~~~r~~RPlSPHLT--------------IYqpQLt~~LS~~hRi 72 (168)
T KOG0449|consen 18 LSQSFLRSIVTLSVTKT-EIKER---------QLLKNQRSNRPLSPHLT--------------IYQPQLTWMLSIFHRI 72 (168)
T ss_pred cccccCcCceeeccccc-ccchH---------HHhhhhhcCCCCCCcee--------------eechhHHHHHHHHHhh
Confidence 34556655555555443 23222 24555567788886633 5999999999999874
No 4
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=35.15 E-value=93 Score=18.00 Aligned_cols=36 Identities=8% Similarity=0.018 Sum_probs=24.1
Q ss_pred hhhhHHhHHHHhhchHHHHHHHHHHhccchhhhhhhh
Q psy4736 14 STAGRLCVDTHTGGPSRTEKEIDDARMMYIPVSKHSS 50 (98)
Q Consensus 14 ~~a~~~~I~~kl~ea~~~~~~I~~~r~~Y~~vA~~~s 50 (98)
.++.-.+|+..+.++.+...+.+..-... |.+.+..
T Consensus 23 r~~~i~~~e~~l~ea~~~l~qMe~E~~~~-p~s~r~~ 58 (79)
T PF05008_consen 23 RKSLIREIERDLDEAEELLKQMELEVRSL-PPSERNQ 58 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCTS--HHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CHHHHHH
Confidence 33333468888888888888887777665 6666544
No 5
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=28.68 E-value=1.7e+02 Score=19.32 Aligned_cols=64 Identities=14% Similarity=0.298 Sum_probs=36.7
Q ss_pred HHHHhhchHHHHHHHHHHhccchhhhhhhhHHHHHHHHhhccChhhhh---------cHHHHHHHHHHHhhcCCCcccHH
Q psy4736 21 VDTHTGGPSRTEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQY---------SLNWFINLYVQSIEGSEKTDQLD 91 (98)
Q Consensus 21 I~~kl~ea~~~~~~I~~~r~~Y~~vA~~~s~lff~i~~L~~l~~~Yqf---------SL~~Fi~lF~~~l~~~~~~~~~~ 91 (98)
.+..+.+..-...+|+...+.|.. .++..|+|+||- |++-|-.+........-++.+++
T Consensus 15 ~e~~lne~~fL~t~i~~I~~~~~~------------~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie 82 (120)
T PF08579_consen 15 TEPSLNEETFLETQIDNINSCFEN------------EDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIE 82 (120)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhh------------cchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHH
Confidence 334444445555566666666654 345555556552 56666666666665555556666
Q ss_pred HHHhh
Q psy4736 92 KRLKI 96 (98)
Q Consensus 92 ~Rl~~ 96 (98)
.|+-+
T Consensus 83 ~kl~~ 87 (120)
T PF08579_consen 83 NKLTN 87 (120)
T ss_pred HHHHH
Confidence 66543
No 6
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=26.51 E-value=46 Score=24.52 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=19.5
Q ss_pred HhhccChhhhhcHHHHHHHHHHH
Q psy4736 58 ELSNIDPMYQYSLNWFINLYVQS 80 (98)
Q Consensus 58 ~L~~l~~~YqfSL~~Fi~lF~~~ 80 (98)
-|..+||+|+|.++.|++-+..+
T Consensus 96 lm~Y~N~i~~~G~e~F~~~~~~a 118 (263)
T CHL00200 96 IFTYYNPVLHYGINKFIKKISQA 118 (263)
T ss_pred EEecccHHHHhCHHHHHHHHHHc
Confidence 46678999999999999888765
No 7
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=25.63 E-value=84 Score=20.43 Aligned_cols=37 Identities=19% Similarity=0.387 Sum_probs=20.2
Q ss_pred HHHHHHHHhhccChhhhhcHHHHHHHHHHHhhcCCCcccHHHHHhhc
Q psy4736 51 VLFFCCAELSNIDPMYQYSLNWFINLYVQSIEGSEKTDQLDKRLKIL 97 (98)
Q Consensus 51 ~lff~i~~L~~l~~~YqfSL~~Fi~lF~~~l~~~~~~~~~~~Rl~~l 97 (98)
..|-.+.....-+| +|.++||++ +-.++++.+|+..|
T Consensus 73 ~~~e~Ik~~Ir~~p--~FrFDwf~k--------SRt~~el~rR~~tL 109 (118)
T PF09111_consen 73 GNWEKIKQEIRESP--LFRFDWFFK--------SRTPQELQRRCNTL 109 (118)
T ss_dssp THHHHHHHHHHH-C--GGCT-HHHH--------TS-HHHHHHHHHHH
T ss_pred chHHHHHHHHHhCC--Ccccchhcc--------cCCHHHHHHHHHHH
Confidence 45555555555555 345566643 34456788888765
No 8
>PF12486 DUF3702: ImpA domain protein ; InterPro: IPR021069 This entry represents a conserved region located towards the C-terminal end of ImpA and related proteins. ImpA is an inner membrane protein, which has been suggested to be involved with proteins that are exported and associated with colony variations in Actinobacillus actinomycetemcomitans []. Note that many members are hypothetical proteins.
Probab=25.53 E-value=1.6e+02 Score=19.93 Aligned_cols=72 Identities=19% Similarity=0.243 Sum_probs=50.5
Q ss_pred HHHHhhchHHHHHHHHHHhccchhhhhhhhHHHHHHHHhhccChhhhhcHHHHHHHHHHHhhcCCCc----ccHHHHHhh
Q psy4736 21 VDTHTGGPSRTEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQYSLNWFINLYVQSIEGSEKT----DQLDKRLKI 96 (98)
Q Consensus 21 I~~kl~ea~~~~~~I~~~r~~Y~~vA~~~s~lff~i~~L~~l~~~YqfSL~~Fi~lF~~~l~~~~~~----~~~~~Rl~~ 96 (98)
...++.........+|+.+..|..++.--+.+|-+-.+|..--| ++.=+.-+.........+ ..++.|++.
T Consensus 64 ~~~~Lq~L~~rL~~le~~rg~Y~TiSeLKT~vy~i~q~l~~~~P-----~Ee~Lrql~~~~~~~~~~~a~l~qi~~~l~~ 138 (148)
T PF12486_consen 64 GMTQLQQLADRLNQLEEQRGKYMTISELKTAVYQIQQSLNQSVP-----LEEQLRQLQQQKEQGQPPSALLKQIDNRLNQ 138 (148)
T ss_pred HHHHHHHHHHHHHHHHHhcCCceeHHHHHHHHHHHHHHhcCCCC-----HHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 55677777888889999999999999999999999999854433 555555555555443332 234445544
Q ss_pred c
Q psy4736 97 L 97 (98)
Q Consensus 97 l 97 (98)
|
T Consensus 139 L 139 (148)
T PF12486_consen 139 L 139 (148)
T ss_pred H
Confidence 3
No 9
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=25.06 E-value=52 Score=20.48 Aligned_cols=18 Identities=22% Similarity=0.259 Sum_probs=13.2
Q ss_pred hchHHHHHHHHHHhccch
Q psy4736 26 GGPSRTEKEIDDARMMYI 43 (98)
Q Consensus 26 ~ea~~~~~~I~~~r~~Y~ 43 (98)
+++++.+++|+++++.++
T Consensus 68 eA~~eL~~eI~eAK~dLr 85 (91)
T PF08285_consen 68 EAAKELQKEIKEAKADLR 85 (91)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456777788888887665
No 10
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=21.96 E-value=1.5e+02 Score=16.48 Aligned_cols=25 Identities=12% Similarity=0.013 Sum_probs=12.7
Q ss_pred hhchHHHHHHHHHHhccchhhhhhh
Q psy4736 25 TGGPSRTEKEIDDARMMYIPVSKHS 49 (98)
Q Consensus 25 l~ea~~~~~~I~~~r~~Y~~vA~~~ 49 (98)
.+.+..+...+...++....+..+.
T Consensus 21 ~~~g~~~l~~L~~Qre~L~~~~~kl 45 (66)
T PF12352_consen 21 EEIGAATLEDLRSQREQLKRVRDKL 45 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555444443
No 11
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=21.59 E-value=91 Score=17.99 Aligned_cols=27 Identities=19% Similarity=0.244 Sum_probs=17.8
Q ss_pred HHHHHhccchhhhhhhhH---HHHHHHHhh
Q psy4736 34 EIDDARMMYIPVSKHSSV---LFFCCAELS 60 (98)
Q Consensus 34 ~I~~~r~~Y~~vA~~~s~---lff~i~~L~ 60 (98)
.=+..++.|+|....+.. +|-++.+|.
T Consensus 28 DW~~~~~~Y~p~v~~~~~~~el~~vl~eMl 57 (70)
T PF14684_consen 28 DWDAVYDRYRPLVPAAKTRDELYDVLNEML 57 (70)
T ss_dssp HHHHHHHHHHGGGGG--SHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 456778999998877664 666666643
No 12
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.07 E-value=1.2e+02 Score=16.64 Aligned_cols=21 Identities=10% Similarity=0.170 Sum_probs=14.2
Q ss_pred hHHHHhhchHHHHHHHHHHhc
Q psy4736 20 CVDTHTGGPSRTEKEIDDARM 40 (98)
Q Consensus 20 ~I~~kl~ea~~~~~~I~~~r~ 40 (98)
.|+++++....-.+++...|+
T Consensus 16 ~IEqkiedid~qIaeLe~KR~ 36 (46)
T PF08946_consen 16 NIEQKIEDIDEQIAELEAKRQ 36 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHhHHHHHHHHHHHHHHHH
Confidence 577777777766666666554
Done!