Query 031944
Match_columns 150
No_of_seqs 24 out of 26
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 07:30:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031944.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031944hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00584 SecE: SecE/Sec61-gamm 99.6 7.5E-16 1.6E-20 100.5 3.1 56 91-146 2-57 (57)
2 PRK05740 secE preprotein trans 99.5 7E-15 1.5E-19 106.1 4.3 58 89-146 34-91 (92)
3 PRK07597 secE preprotein trans 99.5 1.5E-14 3.4E-19 97.0 4.2 58 88-145 7-64 (64)
4 TIGR00964 secE_bact preprotein 99.5 1.6E-14 3.4E-19 95.1 3.0 54 92-145 2-55 (55)
5 COG0690 SecE Preprotein transl 99.4 6.1E-14 1.3E-18 97.8 3.4 55 89-143 18-72 (73)
6 PRK09039 hypothetical protein; 45.2 28 0.00061 30.2 3.6 18 107-124 16-33 (343)
7 TIGR02668 moaA_archaeal probab 40.5 18 0.0004 29.3 1.7 34 2-38 234-267 (302)
8 PF14257 DUF4349: Domain of un 35.5 1.6E+02 0.0035 23.8 6.4 25 72-96 210-234 (262)
9 PRK13361 molybdenum cofactor b 35.5 23 0.00051 29.6 1.6 33 2-38 243-275 (329)
10 PRK09400 secE preprotein trans 35.0 63 0.0014 22.2 3.4 49 88-136 7-55 (61)
11 PF12114 Period_C: Period prot 32.5 26 0.00057 29.1 1.4 36 70-105 90-150 (195)
12 TIGR00540 hemY_coli hemY prote 31.4 73 0.0016 27.1 4.0 36 91-129 17-52 (409)
13 PF07219 HemY_N: HemY protein 30.1 95 0.002 22.3 3.8 15 105-121 5-19 (108)
14 PF04024 PspC: PspC domain; I 28.0 1E+02 0.0022 20.8 3.5 16 131-147 41-56 (61)
15 TIGR03059 psaOeuk photosystem 27.7 32 0.0007 25.7 1.1 10 73-82 49-58 (82)
16 PF04647 AgrB: Accessory gene 26.9 1.4E+02 0.003 22.7 4.4 37 112-148 29-65 (185)
17 PRK00164 moaA molybdenum cofac 26.5 41 0.0009 27.7 1.6 36 2-41 247-282 (331)
18 PF06463 Mob_synth_C: Molybden 26.3 38 0.00082 25.4 1.3 37 2-42 60-96 (128)
19 PF05313 Pox_P21: Poxvirus P21 24.3 1.8E+02 0.0039 24.6 4.9 31 104-135 107-137 (189)
20 PF01102 Glycophorin_A: Glycop 24.1 1.4E+02 0.003 23.2 4.0 26 98-130 53-78 (122)
21 PF14637 FNIP_M: Folliculin-in 24.0 38 0.00082 28.7 1.0 48 73-120 93-143 (232)
22 TIGR00327 secE_euk_arch protei 23.5 1.1E+02 0.0025 21.1 3.1 40 89-128 4-43 (61)
23 PF11190 DUF2976: Protein of u 23.3 1E+02 0.0023 22.7 3.1 42 84-127 39-80 (87)
24 COG4062 MtrB Tetrahydromethano 22.5 1.2E+02 0.0026 23.7 3.4 14 105-118 62-75 (108)
25 PF10717 ODV-E18: Occlusion-de 21.9 92 0.002 23.4 2.5 21 112-132 25-45 (85)
26 PRK14756 hypothetical protein; 21.5 1.4E+02 0.0031 18.6 2.9 23 112-134 3-25 (29)
27 TIGR02666 moaA molybdenum cofa 20.6 64 0.0014 26.7 1.7 37 2-42 246-282 (334)
28 PF05545 FixQ: Cbb3-type cytoc 20.5 1.3E+02 0.0029 18.9 2.8 18 115-132 7-24 (49)
29 PRK11486 flagellar biosynthesi 20.5 1.5E+02 0.0032 23.2 3.5 9 140-148 33-41 (124)
No 1
>PF00584 SecE: SecE/Sec61-gamma subunits of protein translocation complex; InterPro: IPR001901 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. SecE, part of the main SecYEG translocase complex, is ~106 residues in length, and spans the inner membrane of the Gram-negative bacterial envelope. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. In eukaryotes, the evolutionary related protein sec61-gamma plays a role in protein translocation through the endoplasmic reticulum; it is part of a trimeric complex that also consist of sec61-alpha and beta []. Both secE and sec61-gamma are small proteins of about 60 to 90 amino acids that contain a single transmembrane region at their C-terminal extremity (Escherichia coli secE is an exception, in that it possess an extra N-terminal segment of 60 residues that contains two additional transmembrane domains) [].; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0016020 membrane; PDB: 3J01_B 2WW9_B 2WWA_B 3DL8_C 2WWB_B 3DIN_G 2ZJS_E 2ZQP_E.
Probab=99.59 E-value=7.5e-16 Score=100.52 Aligned_cols=56 Identities=29% Similarity=0.497 Sum_probs=53.7
Q ss_pred HHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Q 031944 91 LFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIVALSSVDSALSFILALLL 146 (150)
Q Consensus 91 l~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vlivaLs~VDsaLs~llaliL 146 (150)
+.+|+.|++.|+|||+||+++|++++|.+|++++++++++++.+|.++++++++++
T Consensus 2 ~~~f~~~~~~Elkkv~WP~~~e~~~~t~~Vl~~~~i~~~~~~~vD~~~~~~~~~i~ 57 (57)
T PF00584_consen 2 IKNFFREVKKELKKVTWPSRKELLKSTIIVLVFVIIFGLFFFLVDLIFSWLLNLIL 57 (57)
T ss_dssp CHHHHHCHHHHHHHHHCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 36899999999999999999999999999999999999999999999999999875
No 2
>PRK05740 secE preprotein translocase subunit SecE; Reviewed
Probab=99.53 E-value=7e-15 Score=106.13 Aligned_cols=58 Identities=24% Similarity=0.547 Sum_probs=55.5
Q ss_pred HHHHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Q 031944 89 KSLFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIVALSSVDSALSFILALLL 146 (150)
Q Consensus 89 ksl~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vlivaLs~VDsaLs~llaliL 146 (150)
+.+..|+.|.+.|+|||+||+++|++++|++|++++++++++++.+|.++++++++++
T Consensus 34 ~~~~~F~k~v~~ElkKV~WPtr~e~~~~t~~Viv~~~i~~l~i~~~D~~~~~li~~i~ 91 (92)
T PRK05740 34 KAFFAFAKESRTEVRKVVWPTRQETLQTTLIVIAVVIVMALILWGLDSILVWLISFIT 91 (92)
T ss_pred HHHHHHHHHHHHHhhhccCcCHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4678899999999999999999999999999999999999999999999999999876
No 3
>PRK07597 secE preprotein translocase subunit SecE; Reviewed
Probab=99.51 E-value=1.5e-14 Score=97.02 Aligned_cols=58 Identities=28% Similarity=0.493 Sum_probs=54.5
Q ss_pred HHHHHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 031944 88 LKSLFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIVALSSVDSALSFILALL 145 (150)
Q Consensus 88 ~ksl~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vlivaLs~VDsaLs~llali 145 (150)
.+.+..|+.|.+.|+|||+|||++|+++++++|++++++++++++.+|.++.++++++
T Consensus 7 ~~~~~~f~~~~~~ElkkV~WPs~~e~~~~t~~Vi~~~~~~~~~i~~vD~~~~~~~~~l 64 (64)
T PRK07597 7 MKKLKKFFKDVKAELKKVTWPTRKELVRSTIVVLVFVAFFALFFYLVDLLFSKLISLL 64 (64)
T ss_pred hHHHHHHHHHHHHHHhhCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3568899999999999999999999999999999999999999999999999998753
No 4
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=99.49 E-value=1.6e-14 Score=95.14 Aligned_cols=54 Identities=22% Similarity=0.472 Sum_probs=51.4
Q ss_pred HHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 031944 92 FLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIVALSSVDSALSFILALL 145 (150)
Q Consensus 92 ~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vlivaLs~VDsaLs~llali 145 (150)
.+|+.|.+.|+|||+||+++|+.+++++|++++++++++++.+|.+++++++++
T Consensus 2 ~~f~~~~~~ElkkV~WPt~~e~~~~t~~Vi~~~~~~~~~~~~~D~~~~~~~~~i 55 (55)
T TIGR00964 2 FKFFKEVKAELKKVVWPSRKELITYTIVVIVFVIFFSLFLFGVDYVFGKLISLI 55 (55)
T ss_pred hhHHHHHHHHHhcCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 579999999999999999999999999999999999999999999999998753
No 5
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=99.44 E-value=6.1e-14 Score=97.83 Aligned_cols=55 Identities=24% Similarity=0.495 Sum_probs=52.5
Q ss_pred HHHHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 031944 89 KSLFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIVALSSVDSALSFILA 143 (150)
Q Consensus 89 ksl~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vlivaLs~VDsaLs~lla 143 (150)
+.+.+|+.|...|+|||+|||++|+++++.+|+++++++++++..+|..++++++
T Consensus 18 k~~~~f~~~~~~E~~KV~WPsrke~~~~t~~Vl~~v~~~s~~~~~~D~l~~~~i~ 72 (73)
T COG0690 18 KKFFNFFKEVRKELKKVVWPTRKELIRSTLIVLVVVAFFSLFLYGLDQLIGKLVS 72 (73)
T ss_pred HHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4569999999999999999999999999999999999999999999999999875
No 6
>PRK09039 hypothetical protein; Validated
Probab=45.18 E-value=28 Score=30.21 Aligned_cols=18 Identities=39% Similarity=0.949 Sum_probs=14.0
Q ss_pred cCCccchhhhhHHHHHHH
Q 031944 107 WPGFQSTLKTATLTLVLV 124 (150)
Q Consensus 107 WPsf~eTlkTt~lVLVlV 124 (150)
||+|=+.+.|-++|++||
T Consensus 16 wpg~vd~~~~ll~~~~f~ 33 (343)
T PRK09039 16 WPGFVDALSTLLLVIMFL 33 (343)
T ss_pred CchHHHHHHHHHHHHHHH
Confidence 999999887766666554
No 7
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=40.54 E-value=18 Score=29.26 Aligned_cols=34 Identities=12% Similarity=0.255 Sum_probs=25.8
Q ss_pred ceeccccCCCcCCccccccccceeeeeccccchhhhh
Q 031944 2 SIGLIHSSQRTKLPIEAGRCNRIRFIDYSAIQPVERI 38 (150)
Q Consensus 2 ~~~~~~~~~~~~l~~~~~rcn~i~f~~~~~~~~~~~~ 38 (150)
.+|+|.+-.+. +|=.. ||+||....+.+.||.--
T Consensus 234 ~~g~i~~~~~~--~fC~~-c~r~r~t~dG~l~~Cl~~ 267 (302)
T TIGR02668 234 EVEVVKPMDNP--VFCAH-CTRLRLTSDGKLKTCLLR 267 (302)
T ss_pred EEEEECccCCC--Ccccc-CCeEEEcCCCCEEECCCC
Confidence 47888765552 46644 999999999999999754
No 8
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=35.52 E-value=1.6e+02 Score=23.83 Aligned_cols=25 Identities=16% Similarity=0.153 Sum_probs=17.9
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHh
Q 031944 72 PEEPFWLSLVKDIIWALKSLFLFLV 96 (150)
Q Consensus 72 ~~eP~wl~~~k~~~~~~ksl~~Fl~ 96 (150)
+..+||-.+...+-.++..+..|+.
T Consensus 210 ~~~~~~~~~~~al~~~~~~~~~~~~ 234 (262)
T PF14257_consen 210 ESPSFGSRFRDALKNGWNALVSFLS 234 (262)
T ss_pred CCCCcchHHHHHHHHHHHHHHHHHH
Confidence 4578887777777777777776653
No 9
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=35.52 E-value=23 Score=29.59 Aligned_cols=33 Identities=21% Similarity=0.341 Sum_probs=24.7
Q ss_pred ceeccccCCCcCCccccccccceeeeeccccchhhhh
Q 031944 2 SIGLIHSSQRTKLPIEAGRCNRIRFIDYSAIQPVERI 38 (150)
Q Consensus 2 ~~~~~~~~~~~~l~~~~~rcn~i~f~~~~~~~~~~~~ 38 (150)
.||+|++-.+ || -..||+||....+.+++|---
T Consensus 243 ~ig~I~~~s~---~f-C~~Cnr~rlt~~G~l~~Cl~~ 275 (329)
T PRK13361 243 HIGFISPHSH---NF-CHECNRVRVTAEGQLLLCLGN 275 (329)
T ss_pred EEEEEcCCCc---cc-cccCCeEEEccCCcEEecCCC
Confidence 4788875333 36 788999999999999888543
No 10
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=35.05 E-value=63 Score=22.23 Aligned_cols=49 Identities=18% Similarity=0.013 Sum_probs=35.8
Q ss_pred HHHHHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHHHHhhhHH
Q 031944 88 LKSLFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIVALSSVDS 136 (150)
Q Consensus 88 ~ksl~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vlivaLs~VDs 136 (150)
...+.+|+.|..+=+|.-+=|+++|=.+++-++.+-.+++-+.=..+-.
T Consensus 7 ~e~~~~f~~d~~rvl~~~~KPd~~Ef~~ia~~~~iG~~i~G~iGf~Ikl 55 (61)
T PRK09400 7 QENVKNFLEDYKRVLKVARKPTREEFLLVAKVTGLGILLIGLIGFIIYL 55 (61)
T ss_pred HHhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888888888888899999999888887766655544333333
No 11
>PF12114 Period_C: Period protein 2/3C-terminal region; InterPro: IPR022728 This domain is found in eukaryotes and is typically between 164 to 200 amino acids in length. Sequences represented by this entry are found C-terminal to PF08447 from PFAM.
Probab=32.51 E-value=26 Score=29.09 Aligned_cols=36 Identities=28% Similarity=0.442 Sum_probs=28.5
Q ss_pred CCCCCchhHH---------------------HHHHHHHHHHHHH----HHHhhCcccccce
Q 031944 70 DIPEEPFWLS---------------------LVKDIIWALKSLF----LFLVGQPSQLKHI 105 (150)
Q Consensus 70 d~~~eP~wl~---------------------~~k~~~~~~ksl~----~Fl~Eqp~ELKkV 105 (150)
...+||+||- |+|+=.=.++.+- .|-.|||+||.+|
T Consensus 90 ~~~qdPiWl~~~~t~~~vmmtYQ~p~R~~e~VLkeD~ekLk~mq~~QP~fs~~Qk~EL~qv 150 (195)
T PF12114_consen 90 YVLQDPIWLMMANTDEDVMMTYQMPERDLEEVLKEDREKLKSMQKQQPRFSNEQKEELAQV 150 (195)
T ss_pred cccCCCcchhhccCChhHeEEeecCcccHHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHh
Confidence 3567999984 5677777788887 6889999999876
No 12
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=31.43 E-value=73 Score=27.06 Aligned_cols=36 Identities=11% Similarity=0.148 Sum_probs=20.9
Q ss_pred HHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHHH
Q 031944 91 LFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLIV 129 (150)
Q Consensus 91 l~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vliv 129 (150)
+.-++...|+.. -|.|++. ||-|++.+.++++++.+
T Consensus 17 ~~~~~~~~~Gyv-~i~~~~~--~ie~s~~~~~~~~~~~~ 52 (409)
T TIGR00540 17 AGPMIAGHQGYV-LIETANR--IIEMSITGLAIFFIIAL 52 (409)
T ss_pred HHHHHcCCCCeE-EEEECCE--EEEeeHHHHHHHHHHHH
Confidence 345778888865 4778764 35565555544444333
No 13
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=30.12 E-value=95 Score=22.25 Aligned_cols=15 Identities=27% Similarity=0.727 Sum_probs=6.9
Q ss_pred eecCCccchhhhhHHHH
Q 031944 105 IEWPGFQSTLKTATLTL 121 (150)
Q Consensus 105 VeWPsf~eTlkTt~lVL 121 (150)
|.|+.. ++-|+..+.
T Consensus 5 I~~~~~--~ie~sl~~~ 19 (108)
T PF07219_consen 5 ISWGGY--RIETSLWVA 19 (108)
T ss_pred EEECCE--EEEeeHHHH
Confidence 456554 344444433
No 14
>PF04024 PspC: PspC domain; InterPro: IPR007168 This domain is found in Phage shock protein C (PspC) that is thought to be a transcriptional regulator. The presumed domain is 60 amino acid residues in length.
Probab=28.05 E-value=1e+02 Score=20.83 Aligned_cols=16 Identities=19% Similarity=0.349 Sum_probs=11.7
Q ss_pred HhhhHHHHHHHHHHHhh
Q 031944 131 LSSVDSALSFILALLLR 147 (150)
Q Consensus 131 Ls~VDsaLs~llaliLR 147 (150)
++.. .++.|++.|++-
T Consensus 41 ~~~~-~~l~Y~~~w~~l 56 (61)
T PF04024_consen 41 FTGG-GILLYLILWLLL 56 (61)
T ss_pred HHhH-HHHHHHHHHHHc
Confidence 4444 889999988763
No 15
>TIGR03059 psaOeuk photosystem I protein PsaO. Members of this family are the PsaO protein of photosystem I. This protein is found in chloroplasts but not in Cyanobacteria.
Probab=27.68 E-value=32 Score=25.69 Aligned_cols=10 Identities=50% Similarity=1.341 Sum_probs=8.0
Q ss_pred CCchhHHHHH
Q 031944 73 EEPFWLSLVK 82 (150)
Q Consensus 73 ~eP~wl~~~k 82 (150)
++||||+++-
T Consensus 49 ~~~fWL~lit 58 (82)
T TIGR03059 49 DDPFWLLLFT 58 (82)
T ss_pred CCchHHHHHH
Confidence 3799999973
No 16
>PF04647 AgrB: Accessory gene regulator B; InterPro: IPR006741 The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein [] involved in the proteolytic processing of AgrD, and may have both proteolytic and transporter activities, facilitating the export of the processed AgrD peptide []. ; GO: 0016020 membrane
Probab=26.89 E-value=1.4e+02 Score=22.67 Aligned_cols=37 Identities=16% Similarity=0.372 Sum_probs=30.4
Q ss_pred chhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc
Q 031944 112 STLKTATLTLVLVALLIVALSSVDSALSFILALLLRR 148 (150)
Q Consensus 112 eTlkTt~lVLVlV~vlivaLs~VDsaLs~llaliLRk 148 (150)
|.+-+++..++++.+++.+++.+..++.+++++.+=|
T Consensus 29 e~il~~li~~~~~l~i~~~~g~~~~~li~l~~f~~lR 65 (185)
T PF04647_consen 29 ELILSNLIKIIIILLIGLLLGMFPETLIFLLSFIPLR 65 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 4566778888899999999999999999988776433
No 17
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=26.53 E-value=41 Score=27.70 Aligned_cols=36 Identities=28% Similarity=0.374 Sum_probs=26.0
Q ss_pred ceeccccCCCcCCccccccccceeeeeccccchhhhhccc
Q 031944 2 SIGLIHSSQRTKLPIEAGRCNRIRFIDYSAIQPVERILGG 41 (150)
Q Consensus 2 ~~~~~~~~~~~~l~~~~~rcn~i~f~~~~~~~~~~~~~g~ 41 (150)
.||+|.+-. -||=.. ||++|..-.+.+.||..-..+
T Consensus 247 ~ig~i~~~s---~~fC~~-c~r~r~t~dG~l~~Cl~~~~~ 282 (331)
T PRK00164 247 EIGLIAPVT---HDFCAS-CNRLRLTADGKLHLCLFAEDG 282 (331)
T ss_pred EEEEEeCCC---Cccccc-CCeEEEcCCCcEEEcCCCCCC
Confidence 477776433 347444 999999999999999875443
No 18
>PF06463 Mob_synth_C: Molybdenum Cofactor Synthesis C; InterPro: IPR010505 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This entry represents MoaA, which belongs to a family of enzymes involved in the synthesis of metallo-cofactors (IPR000385 from INTERPRO). Each subunit of the MoaA dimer is comprised of an N-terminal SAM domain (IPR007197 from INTERPRO) that contains the [4Fe-4S] cluster typical for this family of enzymes, as well as an additional [4Fe-4S] cluster in the C-terminal domain that is unique to MoaA proteins []. The unique Fe site of the C-terminal [4Fe-4S] cluster is thought to be involved in the binding and activation of 5'-GTP. Mutations in the human MoCF biosynthesis proteins MOCS1, MOCS2 or GEPH cause MoCF Deficiency type A (MOCOD), causing the loss of activity of MoCF-containing enzymes, resulting in neurological abnormalities and death [].; GO: 0051539 4 iron, 4 sulfur cluster binding, 0006777 Mo-molybdopterin cofactor biosynthetic process, 0019008 molybdopterin synthase complex; PDB: 2FB2_A 2FB3_A 1TV8_B 1TV7_A.
Probab=26.29 E-value=38 Score=25.36 Aligned_cols=37 Identities=24% Similarity=0.484 Sum_probs=20.9
Q ss_pred ceeccccCCCcCCccccccccceeeeeccccchhhhhcccc
Q 031944 2 SIGLIHSSQRTKLPIEAGRCNRIRFIDYSAIQPVERILGGF 42 (150)
Q Consensus 2 ~~~~~~~~~~~~l~~~~~rcn~i~f~~~~~~~~~~~~~g~~ 42 (150)
.||+|.+-.++ | -..||+||-.-.+-+.+|=--..++
T Consensus 60 ~vG~I~~~s~~---F-C~~CNRiRlTsdG~l~~CL~~~~~i 96 (128)
T PF06463_consen 60 RVGFISPVSNP---F-CSSCNRIRLTSDGKLKPCLFSNDGI 96 (128)
T ss_dssp EEEEE-TTTS------GGG--EEEE-TTSEEESSSS-SS-E
T ss_pred EEEEEeCCCCC---C-CCcCCEEEEccCccEEEcccCCCCc
Confidence 47888765554 5 4679999999999888885443333
No 19
>PF05313 Pox_P21: Poxvirus P21 membrane protein; InterPro: IPR007977 The p21 membrane protein of vaccinia virus, encoded by the A17L (or A18L) gene, has been reported to localise on the inner of the two membranes of the intracellular mature virus (IMV). It has also been shown that p21 acts as a membrane anchor for the externally located fusion protein P14 (A27L gene) [].; GO: 0016021 integral to membrane
Probab=24.28 E-value=1.8e+02 Score=24.63 Aligned_cols=31 Identities=16% Similarity=0.367 Sum_probs=24.2
Q ss_pred ceecCCccchhhhhHHHHHHHHHHHHHHhhhH
Q 031944 104 HIEWPGFQSTLKTATLTLVLVALLIVALSSVD 135 (150)
Q Consensus 104 kVeWPsf~eTlkTt~lVLVlV~vlivaLs~VD 135 (150)
++-||+-..++..+++.++++++ .++++++-
T Consensus 107 qi~~~~~~~~~gMsIvcv~~Si~-ti~~~~~s 137 (189)
T PF05313_consen 107 QIYNPGANNNVGMSIVCVIMSII-TIIVNSVS 137 (189)
T ss_pred eeecCCCcceehhHHHHHHHHHH-HHHHHhhh
Confidence 46799999999999998888874 45555555
No 20
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=24.09 E-value=1.4e+02 Score=23.16 Aligned_cols=26 Identities=27% Similarity=0.365 Sum_probs=9.8
Q ss_pred CcccccceecCCccchhhhhHHHHHHHHHHHHH
Q 031944 98 QPSQLKHIEWPGFQSTLKTATLTLVLVALLIVA 130 (150)
Q Consensus 98 qp~ELKkVeWPsf~eTlkTt~lVLVlV~vliva 130 (150)
+++|+++ .|.+- ++..+++.+++.|.
T Consensus 53 ~~~ql~h----~fs~~---~i~~Ii~gv~aGvI 78 (122)
T PF01102_consen 53 ERSQLVH----RFSEP---AIIGIIFGVMAGVI 78 (122)
T ss_dssp ---SSSS----SSS-T---CHHHHHHHHHHHHH
T ss_pred CCccccc----Ccccc---ceeehhHHHHHHHH
Confidence 4555555 33333 34444444444443
No 21
>PF14637 FNIP_M: Folliculin-interacting protein middle domain
Probab=24.01 E-value=38 Score=28.71 Aligned_cols=48 Identities=38% Similarity=0.361 Sum_probs=23.7
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHhhCcccccceecCC---ccchhhhhHHH
Q 031944 73 EEPFWLSLVKDIIWALKSLFLFLVGQPSQLKHIEWPG---FQSTLKTATLT 120 (150)
Q Consensus 73 ~eP~wl~~~k~~~~~~ksl~~Fl~Eqp~ELKkVeWPs---f~eTlkTt~lV 120 (150)
+||.||++.-.-.=.-.-.-.|+.|--.=+..-+=+. |=+|+-||+++
T Consensus 93 ~~PvWL~l~~~~~~k~~l~~~Fl~~l~~Ll~~~dtk~t~fFlS~LlTaVLt 143 (232)
T PF14637_consen 93 KEPVWLSLMSSPSEKRQLANRFLEELCSLLEQYDTKETNFFLSTLLTAVLT 143 (232)
T ss_pred CCChHHHhccCcHhHHHHHHHHHHHHHHHHHHhCCcccccHHHHHHHHHHh
Confidence 4899999876422222233344444332222222222 45666666555
No 22
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=23.51 E-value=1.1e+02 Score=21.15 Aligned_cols=40 Identities=18% Similarity=0.174 Sum_probs=32.2
Q ss_pred HHHHHHHhhCcccccceecCCccchhhhhHHHHHHHHHHH
Q 031944 89 KSLFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALLI 128 (150)
Q Consensus 89 ksl~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vli 128 (150)
..+.+|+.|..+=+|.-+=|+++|=.+.+-+|.+-.+++-
T Consensus 4 e~~~~f~k~~~r~lk~~~KPd~~Ef~~iak~t~iG~~i~G 43 (61)
T TIGR00327 4 EAPVEFIKEGTRVLAVCKKPDLEEYLKVAKVTGIGIIIVG 43 (61)
T ss_pred chHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 3567899999999999999999999888887766544443
No 23
>PF11190 DUF2976: Protein of unknown function (DUF2976); InterPro: IPR021356 Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=23.35 E-value=1e+02 Score=22.70 Aligned_cols=42 Identities=21% Similarity=0.254 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHhhCcccccceecCCccchhhhhHHHHHHHHHH
Q 031944 84 IIWALKSLFLFLVGQPSQLKHIEWPGFQSTLKTATLTLVLVALL 127 (150)
Q Consensus 84 ~~~~~ksl~~Fl~Eqp~ELKkVeWPsf~eTlkTt~lVLVlV~vl 127 (150)
++|=..++..=+.|... .|-+|..|-.++.-+.+.||+|..+
T Consensus 39 fi~Va~~~i~~y~eir~--gK~~W~~fg~~~vVGvvLlv~viwL 80 (87)
T PF11190_consen 39 FIVVAKAAISTYNEIRD--GKKTWGDFGATVVVGVVLLVFVIWL 80 (87)
T ss_pred HHHHHHHHHHHHHHHHc--CcccHHHhhhHHHHHHHHHHHHHHH
Confidence 34555666667788877 7889999999888888777777654
No 24
>COG4062 MtrB Tetrahydromethanopterin S-methyltransferase, subunit B [Coenzyme metabolism]
Probab=22.52 E-value=1.2e+02 Score=23.68 Aligned_cols=14 Identities=29% Similarity=0.418 Sum_probs=11.2
Q ss_pred eecCCccchhhhhH
Q 031944 105 IEWPGFQSTLKTAT 118 (150)
Q Consensus 105 VeWPsf~eTlkTt~ 118 (150)
=+||+|+.|-.||-
T Consensus 62 nS~PgRegv~~~aG 75 (108)
T COG4062 62 NSFPGREGVYATAG 75 (108)
T ss_pred ccCCCccchHHHHH
Confidence 37999999987763
No 25
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=21.91 E-value=92 Score=23.41 Aligned_cols=21 Identities=38% Similarity=0.577 Sum_probs=13.1
Q ss_pred chhhhhHHHHHHHHHHHHHHh
Q 031944 112 STLKTATLTLVLVALLIVALS 132 (150)
Q Consensus 112 eTlkTt~lVLVlV~vlivaLs 132 (150)
+|+-|-+++||.++++++++-
T Consensus 25 n~lMtILivLVIIiLlImlfq 45 (85)
T PF10717_consen 25 NTLMTILIVLVIIILLIMLFQ 45 (85)
T ss_pred hHHHHHHHHHHHHHHHHHHHh
Confidence 456666666666666666553
No 26
>PRK14756 hypothetical protein; Provisional
Probab=21.49 E-value=1.4e+02 Score=18.58 Aligned_cols=23 Identities=35% Similarity=0.391 Sum_probs=15.6
Q ss_pred chhhhhHHHHHHHHHHHHHHhhh
Q 031944 112 STLKTATLTLVLVALLIVALSSV 134 (150)
Q Consensus 112 eTlkTt~lVLVlV~vlivaLs~V 134 (150)
.-+|-..++-|.+..+|+++|..
T Consensus 3 tdLK~SL~tTvvaL~~Iva~~~t 25 (29)
T PRK14756 3 TDLKFSLVTTIIVLGLIVAVGLT 25 (29)
T ss_pred cchhhhHHHHHHHHHHHHHHHHH
Confidence 34667777777777777777653
No 27
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=20.63 E-value=64 Score=26.70 Aligned_cols=37 Identities=24% Similarity=0.375 Sum_probs=25.2
Q ss_pred ceeccccCCCcCCccccccccceeeeeccccchhhhhcccc
Q 031944 2 SIGLIHSSQRTKLPIEAGRCNRIRFIDYSAIQPVERILGGF 42 (150)
Q Consensus 2 ~~~~~~~~~~~~l~~~~~rcn~i~f~~~~~~~~~~~~~g~~ 42 (150)
.||+|..-. -+|=. .||+||..-.+.+.||.....++
T Consensus 246 ~ig~i~~~s---~~fC~-~cnr~r~t~dG~l~~Cl~~~~~~ 282 (334)
T TIGR02666 246 RIGFISPVS---DPFCG-TCNRLRLTADGKLRLCLFADDGV 282 (334)
T ss_pred EEEEEccCC---ccccc-ccCEEEEccCCCEEEccCCCCCC
Confidence 366666433 23654 49999999999999987764443
No 28
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=20.53 E-value=1.3e+02 Score=18.92 Aligned_cols=18 Identities=6% Similarity=0.122 Sum_probs=7.9
Q ss_pred hhhHHHHHHHHHHHHHHh
Q 031944 115 KTATLTLVLVALLIVALS 132 (150)
Q Consensus 115 kTt~lVLVlV~vlivaLs 132 (150)
....=.+.+++++++|++
T Consensus 7 ~~~~~~~~~v~~~~~F~g 24 (49)
T PF05545_consen 7 QGFARSIGTVLFFVFFIG 24 (49)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333334444444444444
No 29
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=20.50 E-value=1.5e+02 Score=23.17 Aligned_cols=9 Identities=33% Similarity=0.552 Sum_probs=6.4
Q ss_pred HHHHHHhhc
Q 031944 140 FILALLLRR 148 (150)
Q Consensus 140 ~llaliLRk 148 (150)
++++|++||
T Consensus 33 ~~~aWLlkR 41 (124)
T PRK11486 33 LAAAWLVKR 41 (124)
T ss_pred HHHHHHHHH
Confidence 345688887
Done!