Query 032840
Match_columns 132
No_of_seqs 119 out of 1029
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 06:34:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032840.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032840hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0225 MsrA Peptide methionin 100.0 3.1E-48 6.6E-53 302.5 9.8 93 40-132 3-99 (174)
2 TIGR00401 msrA methionine-S-su 100.0 7.2E-46 1.6E-50 282.8 10.0 89 44-132 1-93 (149)
3 PRK13014 methionine sulfoxide 100.0 1.1E-45 2.3E-50 290.9 10.6 95 38-132 3-101 (186)
4 PRK14054 methionine sulfoxide 100.0 1.6E-45 3.4E-50 286.7 10.3 91 42-132 2-96 (172)
5 PRK00058 methionine sulfoxide 100.0 1.8E-44 3.8E-49 289.0 11.2 93 40-132 42-138 (213)
6 KOG1635 Peptide methionine sul 100.0 3.8E-44 8.1E-49 280.5 8.5 96 37-132 18-117 (191)
7 PF01625 PMSR: Peptide methion 100.0 2.4E-44 5.1E-49 275.7 6.2 89 44-132 1-93 (155)
8 PRK05528 methionine sulfoxide 100.0 3.5E-43 7.6E-48 270.1 10.4 89 43-132 1-89 (156)
9 PRK05550 bifunctional methioni 100.0 4.9E-42 1.1E-46 284.3 10.7 92 41-132 125-220 (283)
10 PRK14018 trifunctional thiored 100.0 4.3E-40 9.4E-45 290.5 10.6 94 39-132 194-290 (521)
11 PF00403 HMA: Heavy-metal-asso 95.9 0.019 4.2E-07 36.2 4.6 47 50-111 10-56 (62)
12 COG2608 CopZ Copper chaperone 90.2 0.61 1.3E-05 31.0 4.1 48 49-111 13-60 (71)
13 PF07172 GRP: Glycine rich pro 87.8 0.55 1.2E-05 33.6 2.8 24 1-25 1-25 (95)
14 PF02682 AHS1: Allophanate hyd 85.2 1.6 3.4E-05 34.8 4.4 44 54-114 28-73 (202)
15 COG2049 DUR1 Allophanate hydro 82.6 2.1 4.5E-05 35.2 4.1 41 54-111 26-68 (223)
16 PF03852 Vsr: DNA mismatch end 77.6 1.7 3.7E-05 30.2 1.8 19 37-55 50-68 (75)
17 COG3727 Vsr DNA G:T-mismatch r 76.2 3 6.5E-05 32.3 3.0 39 20-58 34-72 (150)
18 PF08098 ATX_III: Anemonia sul 75.0 1.1 2.4E-05 25.4 0.3 9 48-56 11-19 (27)
19 smart00796 AHS1 Allophanate hy 70.6 8.3 0.00018 30.6 4.4 41 54-111 28-70 (201)
20 TIGR00003 copper ion binding p 68.7 17 0.00037 19.9 5.4 47 50-111 14-60 (68)
21 COG2217 ZntA Cation transport 68.6 6.7 0.00015 37.0 4.0 46 50-111 14-60 (713)
22 TIGR02712 urea_carbox urea car 58.6 15 0.00033 36.5 4.6 33 62-111 841-873 (1201)
23 TIGR00370 conserved hypothetic 48.7 27 0.00059 27.8 3.9 37 56-110 25-61 (202)
24 PF11491 DUF3213: Protein of u 45.5 15 0.00032 26.3 1.7 25 87-111 32-56 (88)
25 PF04990 RNA_pol_Rpb1_7: RNA p 44.6 13 0.00027 28.1 1.3 27 90-116 7-38 (135)
26 PHA03303 envelope glycoprotein 44.2 7.8 0.00017 30.4 0.1 15 49-63 143-157 (159)
27 KOG4309 Transcription mediator 43.7 25 0.00055 28.6 2.9 29 91-119 140-174 (217)
28 PRK14624 hypothetical protein; 43.4 17 0.00036 26.9 1.7 32 69-103 33-64 (115)
29 COG3458 Acetyl esterase (deace 39.8 41 0.00088 29.2 3.7 71 44-118 148-238 (321)
30 PF03622 IBV_3B: IBV 3B protei 34.6 23 0.0005 23.9 1.2 17 42-58 36-52 (64)
31 PRK15266 subtilase cytotoxin s 33.2 50 0.0011 25.3 2.9 22 90-111 94-115 (135)
32 PF02083 Urotensin_II: Urotens 32.7 14 0.00031 17.4 -0.0 6 50-55 4-9 (12)
33 TIGR00632 vsr DNA mismatch end 32.3 38 0.00082 25.1 2.2 21 36-56 49-69 (117)
34 PF09716 ETRAMP: Malarial earl 31.7 56 0.0012 22.6 2.8 25 1-25 1-25 (84)
35 TIGR01495 ETRAMP Plasmodium ri 31.5 47 0.001 23.3 2.4 24 1-24 1-24 (85)
36 KOG0207 Cation transport ATPas 30.2 65 0.0014 31.8 3.8 53 46-113 74-129 (951)
37 KOG2003 TPR repeat-containing 29.1 19 0.00042 33.6 0.1 14 47-60 397-410 (840)
38 COG4594 FecB ABC-type Fe3+-cit 28.8 92 0.002 26.8 4.1 30 1-30 1-30 (310)
39 COG3017 LolB Outer membrane li 28.1 67 0.0014 26.3 3.1 31 1-31 1-32 (206)
40 PRK10614 multidrug efflux syst 27.6 79 0.0017 30.7 4.0 48 54-115 160-212 (1025)
41 PF09299 Mu-transpos_C: Mu tra 27.5 33 0.00072 21.7 1.0 14 90-103 35-48 (62)
42 COG1959 Predicted transcriptio 26.5 56 0.0012 24.6 2.3 52 56-123 42-95 (150)
43 PRK14627 hypothetical protein; 26.4 44 0.00095 23.9 1.6 17 87-103 43-59 (100)
44 PF12441 DUF3680: Protein of u 25.0 34 0.00073 21.1 0.7 15 108-122 14-28 (42)
45 PRK14626 hypothetical protein; 24.5 49 0.0011 24.1 1.6 17 87-103 47-63 (110)
46 cd02144 iodotyrosine_dehalogen 23.9 92 0.002 23.0 3.0 30 96-125 13-43 (193)
47 PF00873 ACR_tran: AcrB/AcrD/A 23.8 83 0.0018 30.3 3.3 45 54-112 159-208 (1021)
48 PRK11920 rirA iron-responsive 23.2 69 0.0015 24.1 2.2 45 56-116 41-87 (153)
49 COG2929 Uncharacterized protei 22.3 64 0.0014 23.3 1.8 32 93-124 2-45 (93)
50 PRK15265 subtilase cytotoxin s 22.0 1.4E+02 0.0031 22.9 3.7 23 90-112 90-112 (134)
51 COG0718 Uncharacterized protei 21.4 66 0.0014 23.5 1.7 17 87-103 47-63 (105)
52 PRK06901 aspartate-semialdehyd 21.2 1.3E+02 0.0028 26.0 3.7 26 87-113 227-252 (322)
53 PF15240 Pro-rich: Proline-ric 21.1 89 0.0019 25.0 2.5 16 5-20 1-16 (179)
54 PLN00207 polyribonucleotide nu 20.8 1.1E+02 0.0025 29.9 3.6 52 64-115 221-284 (891)
55 COG0136 Asd Aspartate-semialde 20.7 1.3E+02 0.0028 26.2 3.6 26 88-114 243-268 (334)
No 1
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.1e-48 Score=302.54 Aligned_cols=93 Identities=46% Similarity=0.808 Sum_probs=90.7
Q ss_pred CCCccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHHhcC
Q 032840 40 GRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSH 115 (132)
Q Consensus 40 ~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~~~h 115 (132)
..++++|+||||||||+|+.|+++|||++|++||+||.++||||++|| ||+|+|+|+|||++|||++||++||++|
T Consensus 3 ~~~~~~a~fagGCFWg~E~~f~~i~GV~~t~~GYagG~~~nptY~~Vcsg~TgHaE~V~V~yDp~~isy~~LL~~ff~ih 82 (174)
T COG0225 3 PAGMEKAYFAGGCFWGVEAYFEQIPGVLSTVSGYAGGHTPNPTYEEVCSGTTGHAEAVEVTYDPKVISYEELLEVFFEIH 82 (174)
T ss_pred cCCcEEEEEeccCccchHHHHhhCCCeEEEeeeEcCCCCCCCChhhccCCCCCceEEEEEEeCCccccHHHHHHHHheec
Confidence 356899999999999999999999999999999999999999999996 9999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCC
Q 032840 116 DCRQVFGQGPDVGNQYR 132 (132)
Q Consensus 116 dPt~~~~Qg~D~G~qYR 132 (132)
|||+.||||||+|+|||
T Consensus 83 DPT~~nrQGnD~GtqYR 99 (174)
T COG0225 83 DPTSLNRQGNDRGTQYR 99 (174)
T ss_pred CCCCCCccCCcccccce
Confidence 99999999999999999
No 2
>TIGR00401 msrA methionine-S-sulfoxide reductase. This model describes peptide methionine sulfoxide reductase (MsrA), a repair enzyme for proteins that have been inactivated by oxidation. The enzyme from E. coli is coextensive with this model and has enzymatic activity. However, in all completed genomes in which this module is present, a second protein module, described in TIGR00357, is also found, and in several cases as part of the same polypeptide chain: N-terminal to this module in Helicobacter pylori and Haemophilus influenzae (as in PilB of Neisseria gonorrhoeae) but C-terminal to it in Treponema pallidum. PilB, containing both domains, has been shown to be important for the expression of adhesins in certain pathogens.
Probab=100.00 E-value=7.2e-46 Score=282.80 Aligned_cols=89 Identities=49% Similarity=0.876 Sum_probs=87.2
Q ss_pred cEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHHhcCCCCC
Q 032840 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDCRQ 119 (132)
Q Consensus 44 ~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~~~hdPt~ 119 (132)
++|+||||||||+|+.|++++||++|+|||+||..+||+|++|| ||+|+|+|+|||++|||++||++||++||||+
T Consensus 1 ~~~~~agGCFWg~E~~f~~~~GV~~t~~GYagG~~~~PtY~~Vc~g~tgh~E~V~V~yDp~~is~~~Ll~~f~~~hdPt~ 80 (149)
T TIGR00401 1 EIATFAGGCFWGVEKYFWLIPGVYSTAVGYTGGYTPNPTYEEVCSGDTGHAEAVQVTYDPKVISYEELLDVFWEIHDPTQ 80 (149)
T ss_pred CEEEEecCCchhhHHHHhcCCCEEEEEEeeCCCCCCCCChhhcccCCCCceEEEEEEECCCcCcHHHHHHHHHHhCCCCc
Confidence 47999999999999999999999999999999999999999995 89999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCC
Q 032840 120 VFGQGPDVGNQYR 132 (132)
Q Consensus 120 ~~~Qg~D~G~qYR 132 (132)
.|+||+|+|+|||
T Consensus 81 ~~~Qg~d~G~qYR 93 (149)
T TIGR00401 81 GNRQGNDIGTQYR 93 (149)
T ss_pred CCCCCCCCCCCce
Confidence 9999999999998
No 3
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.1e-45 Score=290.86 Aligned_cols=95 Identities=42% Similarity=0.824 Sum_probs=91.7
Q ss_pred CCCCCccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHHh
Q 032840 38 ELGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWT 113 (132)
Q Consensus 38 ~~~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~~ 113 (132)
.....+++|+||||||||+|+.|+++|||++|+|||+||..+||||++|| ||+|+|+|+|||++|||++||++||+
T Consensus 3 ~~~~~~~~a~~agGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff~ 82 (186)
T PRK13014 3 AAADGMETATFAGGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFFS 82 (186)
T ss_pred CCCCCccEEEEecCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHHH
Confidence 34566899999999999999999999999999999999999999999997 99999999999999999999999999
Q ss_pred cCCCCCCCCCCCCCCCCCC
Q 032840 114 SHDCRQVFGQGPDVGNQYR 132 (132)
Q Consensus 114 ~hdPt~~~~Qg~D~G~qYR 132 (132)
+||||+.|+||+|+|+|||
T Consensus 83 ~hDPt~~~~Qg~D~G~QYR 101 (186)
T PRK13014 83 THDPTQLNRQGPDRGEQYR 101 (186)
T ss_pred hcCCCccCCCCCCCCCCce
Confidence 9999999999999999998
No 4
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.6e-45 Score=286.70 Aligned_cols=91 Identities=46% Similarity=0.837 Sum_probs=89.1
Q ss_pred CccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHHhcCCC
Q 032840 42 PLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDC 117 (132)
Q Consensus 42 ~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~~~hdP 117 (132)
++++|+||||||||+|+.|+++|||++|+|||+||..+||||++|| ||+|+|+|+|||++|||++||++||++|||
T Consensus 2 ~~~~a~fagGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~~~hDP 81 (172)
T PRK14054 2 MMETAVLAGGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFFQIHDP 81 (172)
T ss_pred CceEEEEEcCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHHHhCCC
Confidence 4789999999999999999999999999999999999999999996 899999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCC
Q 032840 118 RQVFGQGPDVGNQYR 132 (132)
Q Consensus 118 t~~~~Qg~D~G~qYR 132 (132)
|+.|+||+|+|+|||
T Consensus 82 t~~~~Qg~D~G~qYR 96 (172)
T PRK14054 82 TTLNRQGNDRGTQYR 96 (172)
T ss_pred CccCCCCCCCCcCce
Confidence 999999999999998
No 5
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.8e-44 Score=289.00 Aligned_cols=93 Identities=51% Similarity=0.908 Sum_probs=90.5
Q ss_pred CCCccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHHhcC
Q 032840 40 GRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSH 115 (132)
Q Consensus 40 ~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~~~h 115 (132)
...++.|+||||||||+|+.|++++||++|+|||+||..+||+|++|| ||+|+|+|+|||++|||++||++||++|
T Consensus 42 ~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff~~h 121 (213)
T PRK00058 42 PEGMEQAIFGMGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFWENH 121 (213)
T ss_pred CCCccEEEEEccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHHhc
Confidence 456899999999999999999999999999999999999999999995 8999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCC
Q 032840 116 DCRQVFGQGPDVGNQYR 132 (132)
Q Consensus 116 dPt~~~~Qg~D~G~qYR 132 (132)
|||+.||||+|+|+|||
T Consensus 122 DPt~~n~QG~D~G~QYR 138 (213)
T PRK00058 122 DPTQGMRQGNDVGTQYR 138 (213)
T ss_pred CCcccCCCCCCCCcCce
Confidence 99999999999999998
No 6
>KOG1635 consensus Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.8e-44 Score=280.50 Aligned_cols=96 Identities=48% Similarity=0.888 Sum_probs=92.9
Q ss_pred CCCCCCccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHH
Q 032840 37 DELGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFW 112 (132)
Q Consensus 37 ~~~~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~ 112 (132)
+.|...++.|+||+|||||+|+.|.++|||++|+|||+||..+||+|++|| ||+|+|||+|||+.+||++||++||
T Consensus 18 d~~~~g~q~a~fg~GCFWg~E~a~~~l~gV~~T~vGYagG~~~nPtYk~vc~~tT~HaEvvrV~ydpk~~sy~~Lld~Fw 97 (191)
T KOG1635|consen 18 DVPAPGLQFATFGAGCFWGVELAYQRLPGVVRTEVGYAGGITDNPTYKDVCSGTTNHAEVVRVQYDPKVISYEELLDFFW 97 (191)
T ss_pred CCCCCccceeeeeccchhhHHHHHhhcCCeEEEeecccCCccCCcchhhhccCCCCcceEEEEEeCcccccHHHHHHHHH
Confidence 456778999999999999999999999999999999999999999999998 5999999999999999999999999
Q ss_pred hcCCCCCCCCCCCCCCCCCC
Q 032840 113 TSHDCRQVFGQGPDVGNQYR 132 (132)
Q Consensus 113 ~~hdPt~~~~Qg~D~G~qYR 132 (132)
++||||+.||||+|+|+|||
T Consensus 98 ~~HdPtt~n~QG~D~GtQYR 117 (191)
T KOG1635|consen 98 SRHDPTTLNRQGNDVGTQYR 117 (191)
T ss_pred HcCCchhhhccCCcccceee
Confidence 99999999999999999998
No 7
>PF01625 PMSR: Peptide methionine sulfoxide reductase; InterPro: IPR002569 Peptide methionine sulphoxide reductase (Msr) reverses the inactivation of many proteins due to the oxidation of critical methionine residues by reducing methionine sulphoxide, Met(O), to methionine []. It is present in most living organisms, and the cognate structural gene belongs to the so-called minimum gene set [, ]. The domains: MsrA and MsrB, reduce different epimeric forms of methionine sulphoxide. This group represent MsrA, the crystal structure of which has been determined in a number of organisms. In Mycobacterium tuberculosis, the MsrA structure has been determined to 1.5 Angstrom resolution []. In contrast to the three catalytic cysteine residues found in previously characterised MsrA structures, M. tuberculosis MsrA represents a class containing only two functional cysteine residues. The overall structure shows no resemblance to the structures of MsrB (IPR002579 from INTERPRO) from other organisms; though the active sites show approximate mirror symmetry. In each case, conserved amino acid motifs mediate the stereo-specific recognition and reduction of the substrate. In a number of pathogenic bacteria including Neisseria gonorrhoeae, the MsrA and MsrB domains are fused; the MsrA being N-terminal to MsrB. This arrangement is reversed in Treponema pallidum. In N. gonorrhoeae and Neisseria meningitidis a thioredoxin domain is fused to the N terminus. This may function to reduce the active sites of the downstream MsrA and MsrB domains. ; GO: 0016671 oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor, 0019538 protein metabolic process, 0055114 oxidation-reduction process; PDB: 2GT3_A 1FF3_B 2IEM_A 3E0M_D 2J89_A 3PIN_B 3PIM_B 3PIL_B 2L90_A 3BQF_A ....
Probab=100.00 E-value=2.4e-44 Score=275.69 Aligned_cols=89 Identities=54% Similarity=0.931 Sum_probs=81.7
Q ss_pred cEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCcccc----CCceeEEEEEecCCCCCHHHHHHHHHhcCCCCC
Q 032840 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL----GDHAESVQVEYDPRVINFRQLLEVFWTSHDCRQ 119 (132)
Q Consensus 44 ~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v----~gh~E~V~V~yDp~~is~~~Ll~~f~~~hdPt~ 119 (132)
++|+||||||||+|+.|+++|||++|+|||+||..++|||++| +||+|+|+|+|||++|||++||++||++||||+
T Consensus 1 e~a~fa~GCFW~~e~~f~~~~GV~~t~vGYagG~~~~PtY~~v~~g~tgh~E~V~V~yD~~~is~~~Ll~~f~~~~dPt~ 80 (155)
T PF01625_consen 1 EKAYFAGGCFWGVEAAFRRLPGVISTRVGYAGGTTPNPTYRQVCSGRTGHAEAVRVTYDPSVISYEELLDVFFRIHDPTQ 80 (155)
T ss_dssp EEEEEEESSHHHHHHHHHTSTTEEEEEEEEESSSSSS--HHHHHTTTTT-EEEEEEEEETTTS-HHHHHHHHHHHS-TTS
T ss_pred CEEEEecCCCeEhHHHHhhCCCEEEEEecccCCCCCCCcceeeecCCCCCeEEEEEEECCCcccHHHHHHHHHHhcCCcc
Confidence 5799999999999999999999999999999999999999999 599999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCC
Q 032840 120 VFGQGPDVGNQYR 132 (132)
Q Consensus 120 ~~~Qg~D~G~qYR 132 (132)
.|+||+|+|+|||
T Consensus 81 ~~~Qg~d~G~qYr 93 (155)
T PF01625_consen 81 VNGQGNDRGTQYR 93 (155)
T ss_dssp TSEETTEESGGG-
T ss_pred cccccCcccccce
Confidence 9999999999998
No 8
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=3.5e-43 Score=270.06 Aligned_cols=89 Identities=33% Similarity=0.562 Sum_probs=85.2
Q ss_pred ccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHHHhcCCCCCCCC
Q 032840 43 LKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTSHDCRQVFG 122 (132)
Q Consensus 43 ~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f~~~hdPt~~~~ 122 (132)
+++|+||||||||+|+.|+++|||++|+|||+||..+||++.. +||+|+|+|+|||++|||++||++||++||||+.|+
T Consensus 1 ~~~a~fagGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~-tgH~E~V~V~yDp~~isy~~LL~~f~~~hdPt~~~~ 79 (156)
T PRK05528 1 METVYFAGGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPY-DGYAECVKTHFDPRMVSITDLMGYLFEIIDPYSVNK 79 (156)
T ss_pred CCEEEEecCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCC-CCcEEEEEEEECCCcCCHHHHHHHHHHhCCcccccc
Confidence 4789999999999999999999999999999999999998433 799999999999999999999999999999999999
Q ss_pred CCCCCCCCCC
Q 032840 123 QGPDVGNQYR 132 (132)
Q Consensus 123 Qg~D~G~qYR 132 (132)
||+|+|+|||
T Consensus 80 Qg~D~G~QYR 89 (156)
T PRK05528 80 QGNDVGEKYR 89 (156)
T ss_pred cCCCCCCCce
Confidence 9999999998
No 9
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=100.00 E-value=4.9e-42 Score=284.32 Aligned_cols=92 Identities=45% Similarity=0.810 Sum_probs=89.6
Q ss_pred CCccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccC----CceeEEEEEecCCCCCHHHHHHHHHhcCC
Q 032840 41 RPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHD 116 (132)
Q Consensus 41 ~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~----gh~E~V~V~yDp~~is~~~Ll~~f~~~hd 116 (132)
..+++|+||||||||+|+.|+++|||++|+|||+||..+||+|++|| ||+|+|+|+|||++|||++||++||++||
T Consensus 125 ~~~~~~~fagGCFWg~E~~F~~~~GV~~t~vGYagG~~~nPtY~~VcsG~tgH~EaV~V~yDp~~isy~~LL~~F~~~hD 204 (283)
T PRK05550 125 YDTEEAIFAGGCFWGVEYYFKKLPGVLSVESGYTGGDTKNPTYEQVCSGTTGHAEAVRVEFDPAKISYETLLKVFFEIHD 204 (283)
T ss_pred ccceEEEEecCCchhhhhhHhhCcCEEEEEEeeCCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHhhcC
Confidence 34899999999999999999999999999999999999999999995 89999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCC
Q 032840 117 CRQVFGQGPDVGNQYR 132 (132)
Q Consensus 117 Pt~~~~Qg~D~G~qYR 132 (132)
||+.|+||+|+|+|||
T Consensus 205 Pt~~~~Qg~D~G~QYR 220 (283)
T PRK05550 205 PTQLNRQGPDIGTQYR 220 (283)
T ss_pred CCccCCCCCCCCcCce
Confidence 9999999999999998
No 10
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=100.00 E-value=4.3e-40 Score=290.49 Aligned_cols=94 Identities=34% Similarity=0.617 Sum_probs=91.1
Q ss_pred CCCCccEEEEcCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCcccc---CCceeEEEEEecCCCCCHHHHHHHHHhcC
Q 032840 39 LGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL---GDHAESVQVEYDPRVINFRQLLEVFWTSH 115 (132)
Q Consensus 39 ~~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v---~gh~E~V~V~yDp~~is~~~Ll~~f~~~h 115 (132)
+..++++|+||||||||+|+.|++++||++|+|||+||..+||||++| +||+|+|+|+|||++|||++||++||++|
T Consensus 194 ~~~~~~~~~~agGCFWg~e~~f~~~~GV~~t~~GYagG~~~~PtY~~Vc~gtgH~E~V~V~yDp~~is~~~Ll~~f~~~~ 273 (521)
T PRK14018 194 KIMNTRTIYLAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVYRHSGHAETVKVTYDADKLSLDTILQYYFRVV 273 (521)
T ss_pred CCCCccEEEEecCCchhhHHHHccCCCEEEEEEeeCCCCCCCCChhhccCCCCcEEEEEEEECCCcCcHHHHHHHHHHhC
Confidence 445789999999999999999999999999999999999999999999 59999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCC
Q 032840 116 DCRQVFGQGPDVGNQYR 132 (132)
Q Consensus 116 dPt~~~~Qg~D~G~qYR 132 (132)
|||+.|+||+|+|+|||
T Consensus 274 dPt~~~~Qg~d~G~qYr 290 (521)
T PRK14018 274 DPTSLNKQGNDTGTQYR 290 (521)
T ss_pred CCccccccCCCCCCCce
Confidence 99999999999999998
No 11
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=95.91 E-value=0.019 Score=36.17 Aligned_cols=47 Identities=26% Similarity=0.392 Sum_probs=40.4
Q ss_pred CCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHH
Q 032840 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 50 gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
.+|-+.+++.+.++|||.++.+=+..+ -|.|.||++.++.++|.+..
T Consensus 10 ~~C~~~v~~~l~~~~GV~~v~vd~~~~---------------~v~v~~~~~~~~~~~i~~~i 56 (62)
T PF00403_consen 10 EGCAKKVEKALSKLPGVKSVKVDLETK---------------TVTVTYDPDKTSIEKIIEAI 56 (62)
T ss_dssp HHHHHHHHHHHHTSTTEEEEEEETTTT---------------EEEEEESTTTSCHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCCcEEEEECCCC---------------EEEEEEecCCCCHHHHHHHH
Confidence 468888899999999999999988755 67899999999999988764
No 12
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=90.16 E-value=0.61 Score=30.96 Aligned_cols=48 Identities=17% Similarity=0.315 Sum_probs=41.1
Q ss_pred cCCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHH
Q 032840 49 ALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 49 agGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
.++|.=-++..+.+++||.++.+-...|. +.|.||+.+++.++|.+..
T Consensus 13 C~~C~~~V~~al~~v~gv~~v~v~l~~~~---------------~~V~~d~~~~~~~~i~~ai 60 (71)
T COG2608 13 CGHCVKTVEKALEEVDGVASVDVDLEKGT---------------ATVTFDSNKVDIEAIIEAI 60 (71)
T ss_pred cHHHHHHHHHHHhcCCCeeEEEEEcccCe---------------EEEEEcCCcCCHHHHHHHH
Confidence 45677777888999999999999987663 7899999999999999873
No 13
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=87.85 E-value=0.55 Score=33.59 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=16.2
Q ss_pred CcchhhHHHHHHHHH-HHHhcccccc
Q 032840 1 MVLSKRYLFFSVLHL-LLLTDTALCI 25 (132)
Q Consensus 1 m~~~~~~~~~~~~~~-~~~~~~~~~~ 25 (132)
|- ||.+|||.++++ +|++.++.+.
T Consensus 1 Ma-SK~~llL~l~LA~lLlisSevaa 25 (95)
T PF07172_consen 1 MA-SKAFLLLGLLLAALLLISSEVAA 25 (95)
T ss_pred Cc-hhHHHHHHHHHHHHHHHHhhhhh
Confidence 55 999999998875 4444444444
No 14
>PF02682 AHS1: Allophanate hydrolase subunit 1; InterPro: IPR003833 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 1 of allophanate hydrolase (AHS1), which is found in urea carboxylase.; PDB: 3VA7_A 3MML_H 3OEP_A 3OPF_C 3ORE_A 2ZP2_A 2KWA_A 2PHC_B.
Probab=85.18 E-value=1.6 Score=34.75 Aligned_cols=44 Identities=23% Similarity=0.298 Sum_probs=34.2
Q ss_pred chhhhhhcc--CCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHHHhc
Q 032840 54 WRSEAVFGC--LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTS 114 (132)
Q Consensus 54 Wg~E~~F~~--l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f~~~ 114 (132)
|...+.+.+ ++||++++.+|. .|-|.|||.++++.+|.+..-+.
T Consensus 28 ~al~~~l~~~~~~gi~e~vp~~~-----------------sllV~fdp~~~~~~~l~~~l~~~ 73 (202)
T PF02682_consen 28 LALARALRAAPLPGIVEVVPAYR-----------------SLLVHFDPLRIDRAALRAALEEL 73 (202)
T ss_dssp HHHHHHHHHHT-TTEEEEEEESS-----------------EEEEEESTTTSHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCCCCeEEeecccc-----------------EEEEEEcCCcCCHHHHHHHHHHh
Confidence 444555555 799999999996 68899999999999888776553
No 15
>COG2049 DUR1 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]
Probab=82.55 E-value=2.1 Score=35.17 Aligned_cols=41 Identities=37% Similarity=0.629 Sum_probs=30.4
Q ss_pred chhhhhhcc--CCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHH
Q 032840 54 WRSEAVFGC--LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 54 Wg~E~~F~~--l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
|.....+.+ ++||++.+.||. .+.|.||+.+++..+|++..
T Consensus 26 ~al~~~l~~~~~~gvve~vP~~~-----------------sllv~~d~~~~~~~~l~~~L 68 (223)
T COG2049 26 WALARALEAAPLPGVVEIVPGYR-----------------SLLVIYDPPRLDPQELLERL 68 (223)
T ss_pred HHHHHHHHhcCCCCeEEecccce-----------------eEEEEecccccCHHHHHHHH
Confidence 333344443 469999999997 58899999999987776543
No 16
>PF03852 Vsr: DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine []. GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine []. The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology []. ; GO: 0004519 endonuclease activity, 0006298 mismatch repair; PDB: 1ODG_A 1VSR_A 1CW0_A.
Probab=77.61 E-value=1.7 Score=30.18 Aligned_cols=19 Identities=37% Similarity=0.642 Sum_probs=14.5
Q ss_pred CCCCCCccEEEEcCCCcch
Q 032840 37 DELGRPLKAAVFALGSFWR 55 (132)
Q Consensus 37 ~~~~~~~~~a~fagGCFWg 55 (132)
|..-...+.|+|--||||+
T Consensus 50 Div~~~~k~aIFVdGCFWH 68 (75)
T PF03852_consen 50 DIVFPKYKIAIFVDGCFWH 68 (75)
T ss_dssp SEEEGGGTEEEEEE-TTTT
T ss_pred CEEECCCCEEEEEecceeC
Confidence 3344578999999999998
No 17
>COG3727 Vsr DNA G:T-mismatch repair endonuclease [DNA replication, recombination, and repair]
Probab=76.19 E-value=3 Score=32.33 Aligned_cols=39 Identities=21% Similarity=0.393 Sum_probs=24.0
Q ss_pred cccccccCCCCCCCcCCCCCCCCccEEEEcCCCcchhhh
Q 032840 20 DTALCIRFPDRVSTSINDELGRPLKAAVFALGSFWRSEA 58 (132)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~fagGCFWg~E~ 58 (132)
+.+...+.-...-...+|......+.++|--||||.--+
T Consensus 34 ~~G~rfR~~~~~lpGkPDiVl~~y~~viFvHGCFWh~H~ 72 (150)
T COG3727 34 GQGLRFRVQDKDLPGKPDIVLPKYRCVIFVHGCFWHGHH 72 (150)
T ss_pred hcceEEEecCCCCCCCCCEeecCceEEEEEeeeeccCCc
Confidence 344444444333333334455678999999999999543
No 18
>PF08098 ATX_III: Anemonia sulcata toxin III family; InterPro: IPR012509 This entry occurs within the Anemonia sulcata toxin III (ATX III) neurotoxin family. ATX III is a neurotoxin that is produced by sea anemone; it adopts a compact structure containing four reverse turns and two other chain reversals, but no regular alpha-helix or beta-sheet. A hydrophobic patch found on the surface of the peptide may constitute part of the sodium channel binding surface [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0042151 nematocyst; PDB: 1ANS_A.
Probab=75.03 E-value=1.1 Score=25.38 Aligned_cols=9 Identities=22% Similarity=0.652 Sum_probs=5.4
Q ss_pred EcCCCcchh
Q 032840 48 FALGSFWRS 56 (132)
Q Consensus 48 fagGCFWg~ 56 (132)
+-+|||||-
T Consensus 11 ~~~gC~WGQ 19 (27)
T PF08098_consen 11 YTGGCPWGQ 19 (27)
T ss_dssp TTTT-SSS-
T ss_pred eecCCcccc
Confidence 457899983
No 19
>smart00796 AHS1 Allophanate hydrolase subunit 1. This domain represents subunit 1 of allophanate hydrolase (AHS1).
Probab=70.60 E-value=8.3 Score=30.60 Aligned_cols=41 Identities=34% Similarity=0.456 Sum_probs=31.0
Q ss_pred chhhhhhc--cCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHH
Q 032840 54 WRSEAVFG--CLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 54 Wg~E~~F~--~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
|.....+. ..+||++++.+|. .+-|.|||.+++..+|++..
T Consensus 28 ~~l~~~l~~~~~~gi~e~vp~~~-----------------sllv~fdp~~~~~~~l~~~l 70 (201)
T smart00796 28 LALARALRAAPLPGVVELVPGYR-----------------SLLVHFDPLVIDPAALLARL 70 (201)
T ss_pred HHHHHHHHhcCCCCeEEccccce-----------------EEEEEEcCCCCCHHHHHHHH
Confidence 44444444 3689999998885 67899999999999887754
No 20
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=68.70 E-value=17 Score=19.85 Aligned_cols=47 Identities=26% Similarity=0.266 Sum_probs=36.5
Q ss_pred CCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHH
Q 032840 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 50 gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
..|-|.+++.+.+.+++..+.+...++ .+.+.||+...+-..+....
T Consensus 14 ~~c~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~ 60 (68)
T TIGR00003 14 QHCVDKIEKFVGELEGVSKVQVKLEKA---------------SVKVEFDAPQATEICIAEAI 60 (68)
T ss_pred HHHHHHHHHHHhcCCCEEEEEEEcCCC---------------EEEEEeCCCCCCHHHHHHHH
Confidence 478899999999999999887777654 46688888777777776554
No 21
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=68.58 E-value=6.7 Score=37.01 Aligned_cols=46 Identities=26% Similarity=0.356 Sum_probs=39.0
Q ss_pred CCCcchhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCC-HHHHHHHH
Q 032840 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN-FRQLLEVF 111 (132)
Q Consensus 50 gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is-~~~Ll~~f 111 (132)
..|-|.+| .+.++|||.+.++-++ +|.+.|.||+..++ .+++...-
T Consensus 14 a~C~~~ie-~l~~~~gV~~~~vn~~---------------t~~~~v~~~~~~~~~~~~~~~~v 60 (713)
T COG2217 14 AACASRIE-ALNKLPGVEEARVNLA---------------TERATVVYDPEEVDLPADIVAAV 60 (713)
T ss_pred HHHHHHHH-HHhcCCCeeEEEeecc---------------cceEEEEecccccccHHHHHHHH
Confidence 46889999 9999999999999886 67888999998887 67777664
No 22
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=58.62 E-value=15 Score=36.49 Aligned_cols=33 Identities=48% Similarity=0.775 Sum_probs=28.3
Q ss_pred cCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHH
Q 032840 62 CLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 62 ~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
.++||++++.||. .+.|.|||.+++..+|++..
T Consensus 841 ~~~gi~e~vP~~~-----------------Sl~v~~dp~~~~~~~l~~~l 873 (1201)
T TIGR02712 841 KLPGIIDLTPGIR-----------------SLQIHYDPRVISQSELLEVL 873 (1201)
T ss_pred CCCCeEEeccccE-----------------EEEEEECCCCCCHHHHHHHH
Confidence 3689999999886 68899999999999887755
No 23
>TIGR00370 conserved hypothetical protein TIGR00370.
Probab=48.74 E-value=27 Score=27.82 Aligned_cols=37 Identities=22% Similarity=0.307 Sum_probs=25.7
Q ss_pred hhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHH
Q 032840 56 SEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (132)
Q Consensus 56 ~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~ 110 (132)
.-+.+.+.+||++++.+|. .|-|.|||..+ ..+|++.
T Consensus 25 l~~~l~~~~gi~e~vP~~~-----------------sllv~fdp~~~-~~~l~~~ 61 (202)
T TIGR00370 25 AAAYLEEQPGFVECIPGMN-----------------NLTVFYDMYEV-YKHLPQR 61 (202)
T ss_pred HHHHHhcCCCcEEeecccE-----------------EEEEEECchhh-HHHHHHH
Confidence 3333443489999998885 57799999877 5655544
No 24
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=45.52 E-value=15 Score=26.30 Aligned_cols=25 Identities=24% Similarity=0.294 Sum_probs=12.9
Q ss_pred CCceeEEEEEecCCCCCHHHHHHHH
Q 032840 87 GDHAESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 87 ~gh~E~V~V~yDp~~is~~~Ll~~f 111 (132)
.|.+-.=.|.||+.+++-++||+.+
T Consensus 32 NgYar~g~VifDe~kl~~e~lL~~l 56 (88)
T PF11491_consen 32 NGYARNGFVIFDESKLSKEELLEML 56 (88)
T ss_dssp -TTSS--EEE--B-S-SHHHH---H
T ss_pred cccccceEEEECcccCCHHHHHHHH
Confidence 3666677899999999999999765
No 25
>PF04990 RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; InterPro: IPR007073 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain, domain 7, represents a mobile module of the RNA polymerase. Domain 7 interacts with the lobe domain of Rpb2 (IPR007642 from INTERPRO) [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_M 1Y77_A 3CQZ_A 3GTM_A 1TWA_A 4A3I_A 2NVY_A 2NVT_A 1I6H_A 1TWF_A ....
Probab=44.64 E-value=13 Score=28.13 Aligned_cols=27 Identities=30% Similarity=0.560 Sum_probs=20.8
Q ss_pred eeEEEEEecCCCCCH-----HHHHHHHHhcCC
Q 032840 90 AESVQVEYDPRVINF-----RQLLEVFWTSHD 116 (132)
Q Consensus 90 ~E~V~V~yDp~~is~-----~~Ll~~f~~~hd 116 (132)
+...+|.|||+.-+- +++++.||+.-|
T Consensus 7 t~~teIyYDPdp~~Tvi~eD~e~V~~y~e~pd 38 (135)
T PF04990_consen 7 TASTEIYYDPDPRNTVIEEDREFVESYFEIPD 38 (135)
T ss_dssp ECEEEEEE-SSTTSSSSSTTHCHHHHCCCTT-
T ss_pred hhheeEEECCCCCCCcchhhHHHHHHHHhCCC
Confidence 567889999987655 789999999866
No 26
>PHA03303 envelope glycoprotein L; Provisional
Probab=44.15 E-value=7.8 Score=30.41 Aligned_cols=15 Identities=20% Similarity=0.556 Sum_probs=13.5
Q ss_pred cCCCcchhhhhhccC
Q 032840 49 ALGSFWRSEAVFGCL 63 (132)
Q Consensus 49 agGCFWg~E~~F~~l 63 (132)
..||+||.+..|+++
T Consensus 143 ~~GCV~g~~~~~~~~ 157 (159)
T PHA03303 143 DIGCVFGADNLFQRL 157 (159)
T ss_pred CCCccccHHHHHHHh
Confidence 679999999999875
No 27
>KOG4309 consensus Transcription mediator-related factor [Transcription]
Probab=43.74 E-value=25 Score=28.56 Aligned_cols=29 Identities=38% Similarity=0.509 Sum_probs=23.5
Q ss_pred eEEEEEecCCCCCH------HHHHHHHHhcCCCCC
Q 032840 91 ESVQVEYDPRVINF------RQLLEVFWTSHDCRQ 119 (132)
Q Consensus 91 E~V~V~yDp~~is~------~~Ll~~f~~~hdPt~ 119 (132)
=+|+|+|||.+|-. -|.|+-||..|-|+.
T Consensus 140 i~vEIEY~pcvI~~~Cw~M~~Eflqsflg~~~p~a 174 (217)
T KOG4309|consen 140 ISVEIEYGPCVIASDCWSMLLEFLQSFLGSHTPGA 174 (217)
T ss_pred EEEEEeeCCEEEhHHHHHHHHHHHHHHhcccCCCc
Confidence 46899999998754 678888999888874
No 28
>PRK14624 hypothetical protein; Provisional
Probab=43.41 E-value=17 Score=26.95 Aligned_cols=32 Identities=16% Similarity=0.213 Sum_probs=22.0
Q ss_pred EEeeecCCCCCCCCccccCCceeEEEEEecCCCCC
Q 032840 69 TTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN 103 (132)
Q Consensus 69 t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is 103 (132)
+..|.+||..-..+ +.|..|+++|..||+.+.
T Consensus 33 ~v~g~sGgG~VkV~---~nG~~~i~~i~Idp~lld 64 (115)
T PRK14624 33 RVVGDAGAGMVTVT---ATGEGQITNVFINKQLFD 64 (115)
T ss_pred EEEEEECCcEEEEE---EEcCccEEEEEECHHHcC
Confidence 45666655322111 358899999999999985
No 29
>COG3458 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.82 E-value=41 Score=29.17 Aligned_cols=71 Identities=21% Similarity=0.490 Sum_probs=53.1
Q ss_pred cEEEEcCCCc---chhhhhhccCCCeEEEEeeecCCCCC----------CC-------CccccCCceeEEEEEecCCCCC
Q 032840 44 KAAVFALGSF---WRSEAVFGCLNGVVRTTVGYAGGSKT----------NP-------EFRNLGDHAESVQVEYDPRVIN 103 (132)
Q Consensus 44 ~~a~fagGCF---Wg~E~~F~~l~GV~~t~vGYagG~~~----------~P-------tY~~v~gh~E~V~V~yDp~~is 103 (132)
+.-|+=.||| |-.-.....++-|-..++|++||+.. +| .|--.|+..-++++ +..=+
T Consensus 148 kd~yyyr~v~~D~~~ave~~~sl~~vde~Ri~v~G~SqGGglalaaaal~~rik~~~~~~Pfl~df~r~i~~---~~~~~ 224 (321)
T COG3458 148 KDTYYYRGVFLDAVRAVEILASLDEVDEERIGVTGGSQGGGLALAAAALDPRIKAVVADYPFLSDFPRAIEL---ATEGP 224 (321)
T ss_pred CCceEEeeehHHHHHHHHHHhccCccchhheEEeccccCchhhhhhhhcChhhhcccccccccccchhheee---cccCc
Confidence 4566778898 55556678899999999999988643 23 33334677778888 66678
Q ss_pred HHHHHHHHHhcCCCC
Q 032840 104 FRQLLEVFWTSHDCR 118 (132)
Q Consensus 104 ~~~Ll~~f~~~hdPt 118 (132)
|.||- .||+.|||.
T Consensus 225 ydei~-~y~k~h~~~ 238 (321)
T COG3458 225 YDEIQ-TYFKRHDPK 238 (321)
T ss_pred HHHHH-HHHHhcCch
Confidence 99986 789999985
No 30
>PF03622 IBV_3B: IBV 3B protein ; InterPro: IPR005295 These proteins are the product of ORF 3B from Infectious bronchitis virus). Currently, the function of this protein remains unknown [].
Probab=34.56 E-value=23 Score=23.86 Aligned_cols=17 Identities=35% Similarity=0.856 Sum_probs=14.9
Q ss_pred CccEEEEcCCCcchhhh
Q 032840 42 PLKAAVFALGSFWRSEA 58 (132)
Q Consensus 42 ~~~~a~fagGCFWg~E~ 58 (132)
..+..|.-+|.||.+|.
T Consensus 36 PFE~cyyrgGsfwEieS 52 (64)
T PF03622_consen 36 PFEVCYYRGGSFWEIES 52 (64)
T ss_pred CeeEEEEecCcEEEeec
Confidence 46889999999999886
No 31
>PRK15266 subtilase cytotoxin subunit B; Provisional
Probab=33.24 E-value=50 Score=25.31 Aligned_cols=22 Identities=14% Similarity=0.431 Sum_probs=17.9
Q ss_pred eeEEEEEecCCCCCHHHHHHHH
Q 032840 90 AESVQVEYDPRVINFRQLLEVF 111 (132)
Q Consensus 90 ~E~V~V~yDp~~is~~~Ll~~f 111 (132)
-+.|||.|+|++-++....+.|
T Consensus 94 G~~VRiYy~~nVWt~p~F~~af 115 (135)
T PRK15266 94 GQSVRIHVQKNIWTYPLFVNTF 115 (135)
T ss_pred CceEEEEEcCCcccCchhhhhc
Confidence 4789999999998877766655
No 32
>PF02083 Urotensin_II: Urotensin II; InterPro: IPR001483 Urotensin II, a small peptide that contains a disulphide bridge, was originally isolated from the caudal portion of the spinal cord of teleost and elasmobranch fish []. The peptide has also been found in the brain of frogs []. Urotensin II seems to be involved in smooth muscle stimulation.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=32.72 E-value=14 Score=17.36 Aligned_cols=6 Identities=33% Similarity=1.171 Sum_probs=4.4
Q ss_pred CCCcch
Q 032840 50 LGSFWR 55 (132)
Q Consensus 50 gGCFWg 55 (132)
.-|||.
T Consensus 4 ~~CFWK 9 (12)
T PF02083_consen 4 SECFWK 9 (12)
T ss_pred cchhhh
Confidence 359995
No 33
>TIGR00632 vsr DNA mismatch endonuclease Vsr. All proteins in this family for which functions are known are G:T mismatch endonucleases that function in a specialized mismatch repair process used usually to repair G:T mismatches in specific sections of the genome. This family was based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Members of this family typically are found near to a DNA cytosine methyltransferase.
Probab=32.34 E-value=38 Score=25.14 Aligned_cols=21 Identities=24% Similarity=0.580 Sum_probs=16.6
Q ss_pred CCCCCCCccEEEEcCCCcchh
Q 032840 36 NDELGRPLKAAVFALGSFWRS 56 (132)
Q Consensus 36 ~~~~~~~~~~a~fagGCFWg~ 56 (132)
+|..-...+.|+|=-||||+-
T Consensus 49 pD~~~~~~klaIfVDGcfWHg 69 (117)
T TIGR00632 49 PDIVFDEYRCVIFIHGCFWHG 69 (117)
T ss_pred ccEEecCCCEEEEEccccccc
Confidence 344446789999999999994
No 34
>PF09716 ETRAMP: Malarial early transcribed membrane protein (ETRAMP); InterPro: IPR006389 These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii []. A homologue from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane []. Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes.
Probab=31.74 E-value=56 Score=22.57 Aligned_cols=25 Identities=36% Similarity=0.611 Sum_probs=17.6
Q ss_pred CcchhhHHHHHHHHHHHHhcccccc
Q 032840 1 MVLSKRYLFFSVLHLLLLTDTALCI 25 (132)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~ 25 (132)
|.+++-+.||+++++.-....|.+-
T Consensus 1 MKi~kv~~ff~~Ll~i~~l~p~~~~ 25 (84)
T PF09716_consen 1 MKISKVFYFFAFLLAINLLTPCLCN 25 (84)
T ss_pred CcHHHHHHHHHHHHHHHhCcCcccc
Confidence 8999998888888874444444433
No 35
>TIGR01495 ETRAMP Plasmodium ring stage membrane protein ETRAMP. These genes have been shown to be found in the sub-telomeric regions of both P. falciparum and P. yoelii chromosomes.
Probab=31.53 E-value=47 Score=23.31 Aligned_cols=24 Identities=29% Similarity=0.508 Sum_probs=18.0
Q ss_pred CcchhhHHHHHHHHHHHHhccccc
Q 032840 1 MVLSKRYLFFSVLHLLLLTDTALC 24 (132)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~ 24 (132)
|.+|+-+.||+++++.-....|.+
T Consensus 1 MKisKi~~f~~~Ll~in~~~p~~~ 24 (85)
T TIGR01495 1 MKVSKILYFFAALLAINFIAPGYC 24 (85)
T ss_pred CchhHHHHHHHHHHHHHhCccccc
Confidence 899999999998887444445554
No 36
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=30.20 E-value=65 Score=31.79 Aligned_cols=53 Identities=21% Similarity=0.219 Sum_probs=40.7
Q ss_pred EEEcCCCcchh---hhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHHHh
Q 032840 46 AVFALGSFWRS---EAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWT 113 (132)
Q Consensus 46 a~fagGCFWg~---E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f~~ 113 (132)
-.-||+|-=|+ |+..++.+||.+..+--.. |.-++.|||++++.+.+.+.+=+
T Consensus 74 ~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~---------------~~~~v~~dp~v~s~~~~~e~ie~ 129 (951)
T KOG0207|consen 74 SVNGMTCASCVATIERNLRKIEGVESAVVALSA---------------SKAEVIYDPAVTSPDSIAESIED 129 (951)
T ss_pred EecCceeHHHHHHHHHHhhccCCcceEEEEeec---------------cceeEEECCcccCchhHHHHHHh
Confidence 44588998887 5557778899887776653 34569999999999999987653
No 37
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=29.07 E-value=19 Score=33.56 Aligned_cols=14 Identities=36% Similarity=0.491 Sum_probs=11.8
Q ss_pred EEcCCCcchhhhhh
Q 032840 47 VFALGSFWRSEAVF 60 (132)
Q Consensus 47 ~fagGCFWg~E~~F 60 (132)
-||.||-||+|..=
T Consensus 397 ~fa~g~dwcle~lk 410 (840)
T KOG2003|consen 397 DFAAGCDWCLESLK 410 (840)
T ss_pred chhcccHHHHHHHH
Confidence 47999999999764
No 38
>COG4594 FecB ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=28.83 E-value=92 Score=26.85 Aligned_cols=30 Identities=23% Similarity=0.329 Sum_probs=21.7
Q ss_pred CcchhhHHHHHHHHHHHHhcccccccCCCC
Q 032840 1 MVLSKRYLFFSVLHLLLLTDTALCIRFPDR 30 (132)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 (132)
|++.+..+..+++++|++..+|++......
T Consensus 1 ~~~~~~~~i~~lll~lllva~C~~s~~~~~ 30 (310)
T COG4594 1 MHMKKTAIILTLLLLLLLVAACSSSDNNQK 30 (310)
T ss_pred CCchhhHHHHHHHHHHHHHHHhcCcCcccc
Confidence 677777777777777888888887754443
No 39
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=28.13 E-value=67 Score=26.26 Aligned_cols=31 Identities=26% Similarity=0.269 Sum_probs=19.8
Q ss_pred CcchhhHHHHHHHHHHHHhcccc-cccCCCCC
Q 032840 1 MVLSKRYLFFSVLHLLLLTDTAL-CIRFPDRV 31 (132)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 31 (132)
|+++|+..++.+.+++++..+|+ ....|..+
T Consensus 1 ~~~~~~~~~~l~~~As~LL~aC~~~~~~~~~~ 32 (206)
T COG3017 1 MPMMKRLLFLLLALASLLLTACTLTASRPPNN 32 (206)
T ss_pred CchHHHHHHHHHHHHHHHHHhccCcCCCCCCC
Confidence 78888888877777655555553 34444444
No 40
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=27.59 E-value=79 Score=30.73 Aligned_cols=48 Identities=17% Similarity=0.347 Sum_probs=36.4
Q ss_pred chhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCC-----CCHHHHHHHHHhcC
Q 032840 54 WRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRV-----INFRQLLEVFWTSH 115 (132)
Q Consensus 54 Wg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~-----is~~~Ll~~f~~~h 115 (132)
|-++..+.++|||.++.++ |+ ..+.++|..||++ +|..++.+..=...
T Consensus 160 ~~l~~~L~~i~GV~~V~~~--G~------------~~~ei~V~vd~~kl~~~gls~~dV~~al~~~~ 212 (1025)
T PRK10614 160 TQLAQTISQIDGVGDVDVG--GS------------SLPAVRVGLNPQALFNQGVSLDDVRQAISNAN 212 (1025)
T ss_pred HHHHHHhcCCCCceEEEec--CC------------CceEEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 4466678899999999874 32 3578999999987 67888887776543
No 41
>PF09299 Mu-transpos_C: Mu transposase, C-terminal; InterPro: IPR015378 This domain is found in various prokaryotic integrases and transposases. It adopts a beta-barrel structure with Greek-key topology []. ; PDB: 1BCO_A 1BCM_B.
Probab=27.50 E-value=33 Score=21.67 Aligned_cols=14 Identities=36% Similarity=0.752 Sum_probs=9.5
Q ss_pred eeEEEEEecCCCCC
Q 032840 90 AESVQVEYDPRVIN 103 (132)
Q Consensus 90 ~E~V~V~yDp~~is 103 (132)
.+.|.|.|||.-++
T Consensus 35 g~~V~vryDp~dl~ 48 (62)
T PF09299_consen 35 GQKVRVRYDPDDLS 48 (62)
T ss_dssp -SEEEEEE-GGGTT
T ss_pred CCEEEEEECcccCC
Confidence 34599999998664
No 42
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=26.51 E-value=56 Score=24.58 Aligned_cols=52 Identities=19% Similarity=0.346 Sum_probs=39.6
Q ss_pred hhhhhccC--CCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHHHhcCCCCCCCCC
Q 032840 56 SEAVFGCL--NGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTSHDCRQVFGQ 123 (132)
Q Consensus 56 ~E~~F~~l--~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f~~~hdPt~~~~Q 123 (132)
+++.|..| .|.+.++-|=-||- ++.=||+.||+.++++..=...+++.....
T Consensus 42 L~kil~~L~kaGlV~S~rG~~GGy----------------~Lar~~~~Isl~dVv~ave~~~~~~~c~~~ 95 (150)
T COG1959 42 LEKILSKLRKAGLVKSVRGKGGGY----------------RLARPPEEITLGDVVRALEGPLALVECFSI 95 (150)
T ss_pred HHHHHHHHHHcCCEEeecCCCCCc----------------cCCCChHHCcHHHHHHHhcCCCCccccCCC
Confidence 57788777 79999999988883 255578889999999888776666554443
No 43
>PRK14627 hypothetical protein; Provisional
Probab=26.42 E-value=44 Score=23.89 Aligned_cols=17 Identities=24% Similarity=0.524 Sum_probs=15.4
Q ss_pred CCceeEEEEEecCCCCC
Q 032840 87 GDHAESVQVEYDPRVIN 103 (132)
Q Consensus 87 ~gh~E~V~V~yDp~~is 103 (132)
.|..|.++|..||+.+.
T Consensus 43 ~G~~~v~~i~Idp~ll~ 59 (100)
T PRK14627 43 NGHREVQSITISPEVVD 59 (100)
T ss_pred EcCccEEEEEECHHHcC
Confidence 58899999999999886
No 44
>PF12441 DUF3680: Protein of unknown function (DUF3680) ; InterPro: IPR022148 This domain family is found in bacteria and archaea, and is approximately 40 amino acids in length.
Probab=25.01 E-value=34 Score=21.09 Aligned_cols=15 Identities=27% Similarity=0.543 Sum_probs=11.5
Q ss_pred HHHHHhcCCCCCCCC
Q 032840 108 LEVFWTSHDCRQVFG 122 (132)
Q Consensus 108 l~~f~~~hdPt~~~~ 122 (132)
...||+.||.|.-.-
T Consensus 14 e~eFW~~hD~tdy~d 28 (42)
T PF12441_consen 14 EREFWDTHDSTDYDD 28 (42)
T ss_pred HHHHHHhccchhhcc
Confidence 468999999986443
No 45
>PRK14626 hypothetical protein; Provisional
Probab=24.51 E-value=49 Score=24.10 Aligned_cols=17 Identities=29% Similarity=0.368 Sum_probs=15.5
Q ss_pred CCceeEEEEEecCCCCC
Q 032840 87 GDHAESVQVEYDPRVIN 103 (132)
Q Consensus 87 ~gh~E~V~V~yDp~~is 103 (132)
.|+.|+++|..||+.++
T Consensus 47 nG~~ev~~i~Id~~ll~ 63 (110)
T PRK14626 47 NGLGEIKDVEIDKSLLN 63 (110)
T ss_pred ECCccEEEEEECHHHcC
Confidence 58999999999999885
No 46
>cd02144 iodotyrosine_dehalogenase Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers.
Probab=23.89 E-value=92 Score=23.00 Aligned_cols=30 Identities=7% Similarity=-0.076 Sum_probs=26.0
Q ss_pred EecCCCCCHHHHHHHHHh-cCCCCCCCCCCC
Q 032840 96 EYDPRVINFRQLLEVFWT-SHDCRQVFGQGP 125 (132)
Q Consensus 96 ~yDp~~is~~~Ll~~f~~-~hdPt~~~~Qg~ 125 (132)
.|+++.|+-++|-+++.. ..-|+..|.|.-
T Consensus 13 ~f~~~~v~~e~l~~il~aa~~APS~~n~Qpw 43 (193)
T cd02144 13 KFSDEPVPREVIENCIRTAGTAPSGANTQPW 43 (193)
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCcCCCCCe
Confidence 588899999999999988 577999999974
No 47
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=23.84 E-value=83 Score=30.26 Aligned_cols=45 Identities=18% Similarity=0.396 Sum_probs=31.0
Q ss_pred chhhhhhccCCCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCC-----CCHHHHHHHHH
Q 032840 54 WRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRV-----INFRQLLEVFW 112 (132)
Q Consensus 54 Wg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~-----is~~~Ll~~f~ 112 (132)
|-++..+.++|||.++.+. | +..|.++|.+||++ +|..++.+..=
T Consensus 159 ~~l~~~L~~i~gV~~v~~~--G------------~~~~ei~i~~d~~kl~~~gls~~~v~~~l~ 208 (1021)
T PF00873_consen 159 EQLKPRLERIPGVARVDIS--G------------GREREIQIELDPEKLAAYGLSLSDVAQALQ 208 (1021)
T ss_dssp HCTHHHHHTSTTEEEEEES--S------------S--EEEEEEE-HHHHHHTT--HHHHHHHHH
T ss_pred HHHHHhccceeEEEEEEec--c------------chhhhhhheechhhhhhhCCCHHHHHHHHH
Confidence 4566678899999998862 3 35789999999987 77788877654
No 48
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=23.23 E-value=69 Score=24.09 Aligned_cols=45 Identities=24% Similarity=0.276 Sum_probs=33.8
Q ss_pred hhhhhccC--CCeEEEEeeecCCCCCCCCccccCCceeEEEEEecCCCCCHHHHHHHHHhcCC
Q 032840 56 SEAVFGCL--NGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTSHD 116 (132)
Q Consensus 56 ~E~~F~~l--~GV~~t~vGYagG~~~~PtY~~v~gh~E~V~V~yDp~~is~~~Ll~~f~~~hd 116 (132)
+++.+..| .|++++.-|=-|| .++.-+|+.|++.++++.+=....
T Consensus 41 L~kIl~~L~~aGlv~S~rG~~GG----------------y~La~~p~eItl~dIi~aveg~~~ 87 (153)
T PRK11920 41 LFKILQPLVEAGLVETVRGRNGG----------------VRLGRPAADISLFDVVRVTEDSFS 87 (153)
T ss_pred HHHHHHHHHHCCCEEeecCCCCC----------------eeecCCHHHCcHHHHHHHHcCCCc
Confidence 56777766 7999999997676 347778888999998888754433
No 49
>COG2929 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.30 E-value=64 Score=23.28 Aligned_cols=32 Identities=22% Similarity=0.420 Sum_probs=22.8
Q ss_pred EEEEecCCC---------CCHHHHHHHHHh---cCCCCCCCCCC
Q 032840 93 VQVEYDPRV---------INFRQLLEVFWT---SHDCRQVFGQG 124 (132)
Q Consensus 93 V~V~yDp~~---------is~~~Ll~~f~~---~hdPt~~~~Qg 124 (132)
++++||+.| +||++.-.+||. .+-|...+.++
T Consensus 2 M~fewDe~Ka~sNl~KHGv~F~da~~vf~d~~~vv~~d~~~~~~ 45 (93)
T COG2929 2 MKFEWDENKARSNLEKHGVSFADAEGVFWDPDAVVVPDKRHSYG 45 (93)
T ss_pred cceEeCchHhhhhHHHcCCCHHHhhhhhcCCceeeecccccccc
Confidence 467788774 899999999998 45555444444
No 50
>PRK15265 subtilase cytotoxin subunit B-like protein; Provisional
Probab=22.01 E-value=1.4e+02 Score=22.85 Aligned_cols=23 Identities=17% Similarity=0.348 Sum_probs=19.2
Q ss_pred eeEEEEEecCCCCCHHHHHHHHH
Q 032840 90 AESVQVEYDPRVINFRQLLEVFW 112 (132)
Q Consensus 90 ~E~V~V~yDp~~is~~~Ll~~f~ 112 (132)
-+-|||.|+|++-+.-.+.+.|=
T Consensus 90 g~~vRiy~~~nVWTdp~F~~~fS 112 (134)
T PRK15265 90 GKRIRVYYAPDVWTNNSFVRALT 112 (134)
T ss_pred CCcEEEEEcCCcccCcHHHhhhc
Confidence 47899999999988888777763
No 51
>COG0718 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.43 E-value=66 Score=23.54 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=15.7
Q ss_pred CCceeEEEEEecCCCCC
Q 032840 87 GDHAESVQVEYDPRVIN 103 (132)
Q Consensus 87 ~gh~E~V~V~yDp~~is 103 (132)
.|+-|+++|..||+.+.
T Consensus 47 ~G~~ev~~v~Idp~l~d 63 (105)
T COG0718 47 NGKGEVKSVEIDPSLLD 63 (105)
T ss_pred eCCCcEEEEEeCHHHcC
Confidence 58999999999999888
No 52
>PRK06901 aspartate-semialdehyde dehydrogenase; Provisional
Probab=21.20 E-value=1.3e+02 Score=26.01 Aligned_cols=26 Identities=12% Similarity=0.050 Sum_probs=22.6
Q ss_pred CCceeEEEEEecCCCCCHHHHHHHHHh
Q 032840 87 GDHAESVQVEYDPRVINFRQLLEVFWT 113 (132)
Q Consensus 87 ~gh~E~V~V~yDp~~is~~~Ll~~f~~ 113 (132)
-||+|+|.|+++.. ++.+++.+.+-+
T Consensus 227 ~GHs~sV~ve~e~~-~~~e~~~~~l~~ 252 (322)
T PRK06901 227 YGLAQMVTALSEYE-LDIESQLAEWQQ 252 (322)
T ss_pred ccEEEEEEEEECCC-CCHHHHHHHHHh
Confidence 39999999999776 899999988864
No 53
>PF15240 Pro-rich: Proline-rich
Probab=21.15 E-value=89 Score=24.98 Aligned_cols=16 Identities=25% Similarity=0.222 Sum_probs=9.7
Q ss_pred hhHHHHHHHHHHHHhc
Q 032840 5 KRYLFFSVLHLLLLTD 20 (132)
Q Consensus 5 ~~~~~~~~~~~~~~~~ 20 (132)
|+.+|||+.||-|+.+
T Consensus 1 MLlVLLSvALLALSSA 16 (179)
T PF15240_consen 1 MLLVLLSVALLALSSA 16 (179)
T ss_pred ChhHHHHHHHHHhhhc
Confidence 4567777777644433
No 54
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=20.83 E-value=1.1e+02 Score=29.92 Aligned_cols=52 Identities=19% Similarity=0.265 Sum_probs=39.2
Q ss_pred CC-eEEEEeeecCCC-CCCCCcccc---------CC-ceeEEEEEecCCCCCHHHHHHHHHhcC
Q 032840 64 NG-VVRTTVGYAGGS-KTNPEFRNL---------GD-HAESVQVEYDPRVINFRQLLEVFWTSH 115 (132)
Q Consensus 64 ~G-V~~t~vGYagG~-~~~PtY~~v---------~g-h~E~V~V~yDp~~is~~~Ll~~f~~~h 115 (132)
.| |..++|||.+|. +-||++++. .+ --..|.|+-+.+.++.++|++..--.|
T Consensus 221 ~gpVaAVrVG~idg~~VlnPt~~E~~~s~ldLvvagt~~~IvMIE~~a~e~see~l~~Al~~a~ 284 (891)
T PLN00207 221 LKAIAGVRVGLIGGKFIVNPTTKEMEESELDLIMAGTDSAILMIEGYCNFLPEEKLLEAVEVGQ 284 (891)
T ss_pred cCceEEEEEEEECCEEEECCCHHHHhcCCeeEEEEEcCCeEEEEEcCCCCCCHHHHHHHHHHHH
Confidence 35 679999999884 569999864 12 135888888998899999988764433
No 55
>COG0136 Asd Aspartate-semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=20.69 E-value=1.3e+02 Score=26.22 Aligned_cols=26 Identities=27% Similarity=0.469 Sum_probs=21.4
Q ss_pred CceeEEEEEecCCCCCHHHHHHHHHhc
Q 032840 88 DHAESVQVEYDPRVINFRQLLEVFWTS 114 (132)
Q Consensus 88 gh~E~V~V~yDp~~is~~~Ll~~f~~~ 114 (132)
||.|+|-|.+|.+ ++.++..+.+...
T Consensus 243 GHse~v~ve~~~~-~~~~e~~~~~l~~ 268 (334)
T COG0136 243 GHSEAVTVEFKKD-VDPEEIREELLPS 268 (334)
T ss_pred ccceEEEEEecCC-CCHHHHHHHHhcc
Confidence 9999999999854 7999988776543
Done!