Query 043507
Match_columns 88
No_of_seqs 102 out of 1102
Neff 11.2
Searched_HMMs 46136
Date Fri Mar 29 05:46:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043507.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043507hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00403 HMA: Heavy-metal-asso 99.4 8.6E-12 1.9E-16 57.1 8.5 58 6-63 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.3 9.9E-11 2.1E-15 55.0 8.8 63 4-66 3-69 (71)
3 KOG4656 Copper chaperone for s 98.9 4.6E-08 1E-12 54.0 8.3 66 4-69 8-73 (247)
4 KOG1603 Copper chaperone [Inor 98.7 5.7E-07 1.2E-11 42.4 8.7 58 4-61 6-63 (73)
5 PRK10671 copA copper exporting 98.6 5.7E-07 1.2E-11 59.0 8.1 65 1-67 1-66 (834)
6 PLN02957 copper, zinc superoxi 98.2 8.8E-05 1.9E-09 42.5 10.3 66 4-69 7-72 (238)
7 COG2217 ZntA Cation transport 98.2 1.8E-05 3.9E-10 51.4 7.7 63 3-66 2-69 (713)
8 KOG0207 Cation transport ATPas 97.7 0.00046 1E-08 45.9 7.4 65 4-68 147-215 (951)
9 TIGR00003 copper ion binding p 97.7 0.00076 1.7E-08 29.5 8.6 59 5-63 4-66 (68)
10 PRK10671 copA copper exporting 97.1 0.0062 1.3E-07 40.8 8.0 62 4-65 100-162 (834)
11 KOG0207 Cation transport ATPas 97.1 0.0037 7.9E-08 41.9 6.3 62 10-71 2-65 (951)
12 PRK11033 zntA zinc/cadmium/mer 97.0 0.012 2.7E-07 39.0 8.1 62 4-65 54-117 (741)
13 PRK13748 putative mercuric red 80.3 14 0.00029 24.2 8.8 60 7-66 4-66 (561)
14 PRK14054 methionine sulfoxide 76.9 8.5 0.00018 21.4 4.0 28 14-41 10-37 (172)
15 PRK11018 hypothetical protein; 75.8 7.2 0.00016 18.5 6.0 53 5-66 9-64 (78)
16 PF01206 TusA: Sulfurtransfera 74.0 7.3 0.00016 17.7 5.8 53 6-67 2-57 (70)
17 COG0425 SirA Predicted redox p 72.0 6.4 0.00014 18.8 2.5 53 4-65 5-61 (78)
18 COG0225 MsrA Peptide methionin 71.1 12 0.00027 20.9 3.6 28 14-41 13-40 (174)
19 TIGR02052 MerP mercuric transp 69.6 10 0.00022 17.5 9.3 59 5-63 25-87 (92)
20 PRK00299 sulfur transfer prote 69.2 11 0.00025 18.0 6.8 54 4-66 9-65 (81)
21 cd03420 SirA_RHOD_Pry_redox Si 63.5 14 0.0003 16.9 5.0 51 7-66 2-55 (69)
22 PRK05528 methionine sulfoxide 61.9 13 0.00029 20.4 2.7 27 14-40 8-34 (156)
23 PF01625 PMSR: Peptide methion 61.3 17 0.00038 19.8 3.1 27 14-40 7-33 (155)
24 cd03422 YedF YedF is a bacteri 57.2 19 0.00042 16.5 5.1 51 7-66 2-55 (69)
25 cd00371 HMA Heavy-metal-associ 56.5 12 0.00026 14.0 5.3 34 8-41 3-37 (63)
26 TIGR00401 msrA methionine-S-su 53.8 21 0.00046 19.4 2.6 27 14-40 7-33 (149)
27 COG4837 Uncharacterized protei 53.7 9.7 0.00021 19.1 1.2 19 1-19 1-22 (106)
28 cd03421 SirA_like_N SirA_like_ 53.1 22 0.00048 16.0 5.3 50 7-66 2-54 (67)
29 cd03423 SirA SirA (also known 50.7 26 0.00056 16.0 5.8 52 7-67 2-56 (69)
30 PRK00058 methionine sulfoxide 48.4 24 0.00052 20.5 2.4 27 14-40 52-78 (213)
31 cd00291 SirA_YedF_YeeD SirA, Y 43.8 33 0.00072 15.3 5.5 51 7-66 2-55 (69)
32 PRK13014 methionine sulfoxide 42.4 23 0.00051 20.0 1.7 27 14-40 15-41 (186)
33 KOG2990 C2C2-type Zn-finger pr 39.6 23 0.00051 21.5 1.5 20 4-23 44-65 (317)
34 PF15644 Tox-PL: Papain fold t 31.6 52 0.0011 16.6 1.9 23 12-34 2-24 (111)
35 COG4669 EscJ Type III secretor 30.1 92 0.002 18.6 2.9 22 16-37 110-131 (246)
36 PF14599 zinc_ribbon_6: Zinc-r 28.5 25 0.00054 16.1 0.4 15 4-18 41-56 (61)
37 PRK05550 bifunctional methioni 27.8 76 0.0017 19.4 2.4 27 14-40 134-160 (283)
38 COG1856 Uncharacterized homolo 27.7 46 0.001 19.8 1.4 15 10-24 22-36 (275)
39 PRK14018 trifunctional thiored 27.4 1.5E+02 0.0032 20.0 3.7 27 14-40 205-231 (521)
40 KOG1635 Peptide methionine sul 26.9 99 0.0022 17.6 2.5 27 14-40 31-57 (191)
41 PRK10509 bacterioferritin-asso 25.8 62 0.0013 14.8 1.4 17 10-26 36-52 (64)
42 TIGR03527 selenium_YedF seleni 25.5 1.4E+02 0.0031 17.0 5.4 48 10-66 5-54 (194)
43 PRK11589 gcvR glycine cleavage 25.2 1.4E+02 0.0031 17.0 3.1 40 1-40 5-46 (190)
44 PF08394 Arc_trans_TRASH: Arch 24.3 64 0.0014 13.1 1.2 13 11-23 24-36 (37)
45 PF10825 DUF2752: Protein of u 24.2 26 0.00056 15.3 0.0 12 8-19 6-18 (52)
46 PF12156 ATPase-cat_bd: Putati 23.9 83 0.0018 15.4 1.8 17 10-26 26-42 (88)
47 PF09122 DUF1930: Domain of un 23.0 98 0.0021 14.3 3.6 39 5-43 21-60 (68)
48 PF01514 YscJ_FliF: Secretory 22.7 1.7E+02 0.0036 16.8 3.3 21 17-37 117-137 (206)
49 PF04324 Fer2_BFD: BFD-like [2 22.7 37 0.00079 14.6 0.4 16 10-25 37-52 (55)
50 PF15643 Tox-PL-2: Papain fold 21.2 78 0.0017 16.1 1.4 17 10-26 18-34 (100)
51 TIGR02544 III_secr_YscJ type I 20.4 1.8E+02 0.0039 16.6 2.8 21 17-37 109-129 (193)
52 PF02061 Lambda_CIII: Lambda P 20.2 50 0.0011 13.8 0.5 18 6-23 2-20 (45)
No 1
>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=99.41 E-value=8.6e-12 Score=57.13 Aligned_cols=58 Identities=34% Similarity=0.685 Sum_probs=52.3
Q ss_pred EEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEec---CCHHHHHHHHHhcCCc
Q 043507 6 VLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKGN---VQPDAVLQTVSKAGKK 63 (88)
Q Consensus 6 ~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~~---~~~~~i~~~i~~~g~~ 63 (88)
.|.+ ||.|.+|..++++.|.+++|+..+.+++..+++.+... ..++.+...+...||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 4789 99999999999999999999999999999999999832 4579999999999984
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.31 E-value=9.9e-11 Score=55.02 Aligned_cols=63 Identities=33% Similarity=0.613 Sum_probs=55.6
Q ss_pred EEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--e-cCCHHHHHHHHHhcCCceEE
Q 043507 4 TVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--G-NVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~-~~~~~~i~~~i~~~g~~~~~ 66 (88)
+..+.+ ||.|.+|+..+++.|..++|+..+.+++..+...+. . ....+.+...+...||....
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~ 69 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEE 69 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeee
Confidence 467899 999999999999999999999999999999777766 3 46899999999999997653
No 3
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.88 E-value=4.6e-08 Score=53.97 Aligned_cols=66 Identities=29% Similarity=0.587 Sum_probs=60.3
Q ss_pred EEEEEEcccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEecCCHHHHHHHHHhcCCceEEecc
Q 043507 4 TVVLKVDMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKAGKKTAFWEE 69 (88)
Q Consensus 4 ~~~~~~~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (88)
+.+|.+.|.|.+|++.++..|..++|+..+.+++..+.+.+.....+..+...+...|.++.....
T Consensus 8 ~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~ 73 (247)
T KOG4656|consen 8 EAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGA 73 (247)
T ss_pred eEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecC
Confidence 467888999999999999999999999999999999999999888999999999999998876544
No 4
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.74 E-value=5.7e-07 Score=42.43 Aligned_cols=58 Identities=64% Similarity=0.993 Sum_probs=52.2
Q ss_pred EEEEEEcccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEecCCHHHHHHHHHhcC
Q 043507 4 TVVLKVDMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKAG 61 (88)
Q Consensus 4 ~~~~~~~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g 61 (88)
...+.+.|.|.+|...+.+.+..+.|+....++...+.+++.+..++..+...+...+
T Consensus 6 ~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~ 63 (73)
T KOG1603|consen 6 TVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTG 63 (73)
T ss_pred EEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcC
Confidence 3556669999999999999999999999999999999999998789999999998866
No 5
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.59 E-value=5.7e-07 Score=59.05 Aligned_cols=65 Identities=31% Similarity=0.523 Sum_probs=55.8
Q ss_pred CceEEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 043507 1 MSQTVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKAGKKTAFW 67 (88)
Q Consensus 1 ~~~~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~~~ 67 (88)
|+.+..+.+ ||.|.+|..++++.+++++|+..+.+++. ...+....+.+.+...+...||.....
T Consensus 1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~ 66 (834)
T PRK10671 1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVS 66 (834)
T ss_pred CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCccccc
Confidence 778899999 99999999999999999999999999983 444445567888899999999987754
No 6
>PLN02957 copper, zinc superoxide dismutase
Probab=98.22 E-value=8.8e-05 Score=42.51 Aligned_cols=66 Identities=33% Similarity=0.594 Sum_probs=54.6
Q ss_pred EEEEEEcccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEecCCHHHHHHHHHhcCCceEEecc
Q 043507 4 TVVLKVDMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKAGKKTAFWEE 69 (88)
Q Consensus 4 ~~~~~~~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (88)
+..+.++|.|..|...+++.+..++++....+++..+.+.+........+...+...||.+.+...
T Consensus 7 ~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~ 72 (238)
T PLN02957 7 LTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQ 72 (238)
T ss_pred EEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecC
Confidence 345556999999999999999999999999999999888877555777788889999998765543
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.19 E-value=1.8e-05 Score=51.42 Aligned_cols=63 Identities=30% Similarity=0.565 Sum_probs=54.0
Q ss_pred eEEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEe---cCC-HHHHHHHHHhcCCceEE
Q 043507 3 QTVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKG---NVQ-PDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 3 ~~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~---~~~-~~~i~~~i~~~g~~~~~ 66 (88)
.+..+.+ ||.|..|.++++ .+++++|+....+|+...+..+.. ... ...+...+...||....
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 3567899 999999999999 999999999999999999988772 234 67888899999997654
No 8
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.66 E-value=0.00046 Score=45.90 Aligned_cols=65 Identities=20% Similarity=0.529 Sum_probs=56.8
Q ss_pred EEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE---ecCCHHHHHHHHHhcCCceEEec
Q 043507 4 TVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK---GNVQPDAVLQTVSKAGKKTAFWE 68 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~---~~~~~~~i~~~i~~~g~~~~~~~ 68 (88)
++.|.+ ||.|.+|+..++..+.+++|+.+.+++....++.+. ....+.++...+.+.|+......
T Consensus 147 ~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~ 215 (951)
T KOG0207|consen 147 KIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRP 215 (951)
T ss_pred cEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeee
Confidence 577899 999999999999999999999999999999988876 23579999999999998765543
No 9
>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=97.65 E-value=0.00076 Score=29.50 Aligned_cols=59 Identities=20% Similarity=0.521 Sum_probs=44.3
Q ss_pred EEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEe---cCCHHHHHHHHHhcCCc
Q 043507 5 VVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKG---NVQPDAVLQTVSKAGKK 63 (88)
Q Consensus 5 ~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~---~~~~~~i~~~i~~~g~~ 63 (88)
..+.+ ++.|..|...++..+....++....+++......+.. ......+...+...|+.
T Consensus 4 ~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 66 (68)
T TIGR00003 4 FTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYE 66 (68)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCC
Confidence 56889 9999999999999999999988888888887766652 23455555555565653
No 10
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.13 E-value=0.0062 Score=40.80 Aligned_cols=62 Identities=31% Similarity=0.530 Sum_probs=50.0
Q ss_pred EEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEecCCHHHHHHHHHhcCCceE
Q 043507 4 TVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKAGKKTA 65 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~ 65 (88)
+..+.+ ||.|..|...+++.+...+|+....+++......+........+...+...|+...
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~ 162 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAE 162 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcc
Confidence 356889 99999999999999999999999999988877666544456667677778888654
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.05 E-value=0.0037 Score=41.94 Aligned_cols=62 Identities=18% Similarity=0.568 Sum_probs=53.6
Q ss_pred cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEEeccCC
Q 043507 10 DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAFWEEEK 71 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~~~~~ 71 (88)
||.|..|++.++..++..+|+....+++......+. ....++.+...+...||++.......
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~~~ 65 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSDSE 65 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeecccCc
Confidence 789999999999999999999999999988887776 44578889999999999988765543
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.96 E-value=0.012 Score=39.03 Aligned_cols=62 Identities=26% Similarity=0.382 Sum_probs=47.6
Q ss_pred EEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEe-cCCHHHHHHHHHhcCCceE
Q 043507 4 TVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKG-NVQPDAVLQTVSKAGKKTA 65 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~-~~~~~~i~~~i~~~g~~~~ 65 (88)
+..+.+ ||.|.+|...+++.+...+++....+++...+..+.. ......+...+...||...
T Consensus 54 r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~ 117 (741)
T PRK11033 54 RYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLR 117 (741)
T ss_pred eEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccc
Confidence 456889 9999999999999999999999999998887766652 1122455566677787654
No 13
>PRK13748 putative mercuric reductase; Provisional
Probab=80.33 E-value=14 Score=24.18 Aligned_cols=60 Identities=28% Similarity=0.546 Sum_probs=41.3
Q ss_pred EEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEe--cCCHHHHHHHHHhcCCceEE
Q 043507 7 LKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKG--NVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 7 ~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~--~~~~~~i~~~i~~~g~~~~~ 66 (88)
+.+ ++.|.+|...++..+...+++.....++......+.. ......+...+...++....
T Consensus 4 i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~ 66 (561)
T PRK13748 4 LKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATL 66 (561)
T ss_pred EEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeec
Confidence 567 9999999999999988888877777777766644442 22344444455666665443
No 14
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=76.85 E-value=8.5 Score=21.43 Aligned_cols=28 Identities=14% Similarity=0.413 Sum_probs=23.7
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCCE
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQK 41 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~~ 41 (88)
.+|.+.++..+..++||..+.+....+.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 6799999999999999999888766553
No 15
>PRK11018 hypothetical protein; Provisional
Probab=75.78 E-value=7.2 Score=18.50 Aligned_cols=53 Identities=11% Similarity=0.016 Sum_probs=38.0
Q ss_pred EEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 5 VVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 5 ~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
..+.. |..|+....+..+.+.++.. +..+.+. .......+.......|+.+..
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 56788 99999999999999987632 2233333 334566777888889998753
No 16
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=73.99 E-value=7.3 Score=17.74 Aligned_cols=53 Identities=13% Similarity=0.130 Sum_probs=36.5
Q ss_pred EEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 043507 6 VLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAFW 67 (88)
Q Consensus 6 ~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (88)
.+.+ |..|+.+...+.+.+..++.. ..+.+. .+.....+.......|+.+...
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 4677 999999999999999876322 233333 3345677888888999875544
No 17
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=72.04 E-value=6.4 Score=18.78 Aligned_cols=53 Identities=19% Similarity=0.287 Sum_probs=34.3
Q ss_pred EEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcC-CceE
Q 043507 4 TVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAG-KKTA 65 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g-~~~~ 65 (88)
...+.+ |..|+.....+.+++.+++- +..+.|. .+.....+.......| +...
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~~---------Ge~LeV~~ddp~~~~dIp~~~~~~~~~~ll 61 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLKP---------GEILEVIADDPAAKEDIPAWAKKEGGHELL 61 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCCC---------CCEEEEEecCcchHHHHHHHHHHcCCcEEE
Confidence 457889 99999999999999987632 2233333 2334556666666444 5543
No 18
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=71.09 E-value=12 Score=20.91 Aligned_cols=28 Identities=18% Similarity=0.318 Sum_probs=22.9
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCCE
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQK 41 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~~ 41 (88)
.+|.+-++..+.+++||..+......+.
T Consensus 13 gGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 13 GGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred ccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 5799999999999999998887755443
No 19
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=69.63 E-value=10 Score=17.50 Aligned_cols=59 Identities=29% Similarity=0.452 Sum_probs=37.5
Q ss_pred EEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEEe---cCCHHHHHHHHHhcCCc
Q 043507 5 VVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVKG---NVQPDAVLQTVSKAGKK 63 (88)
Q Consensus 5 ~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~~---~~~~~~i~~~i~~~g~~ 63 (88)
..+.+ ++.|..|...++..+....++.....+.......+.. ......+...+...|+.
T Consensus 25 ~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 87 (92)
T TIGR02052 25 VTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYP 87 (92)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCC
Confidence 45668 8999999999998888888877666666555543331 12333333344445554
No 20
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=69.17 E-value=11 Score=17.96 Aligned_cols=54 Identities=7% Similarity=0.089 Sum_probs=38.0
Q ss_pred EEEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 4 TVVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
...+.. |..|+.......+.+.+++. .+.+.+. .+.....+.......|+.+..
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 456788 99999999999999987632 2233333 334566677777888888754
No 21
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=63.53 E-value=14 Score=16.95 Aligned_cols=51 Identities=14% Similarity=0.212 Sum_probs=36.0
Q ss_pred EEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 7 LKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 7 ~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
+.+ |..|+.......+++.++.. +..+.+. .+.....+.......|+.+..
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~ 55 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLIS 55 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEE
Confidence 456 89999999999999987632 2233333 334567778888889998764
No 22
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=61.91 E-value=13 Score=20.36 Aligned_cols=27 Identities=19% Similarity=0.315 Sum_probs=22.8
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+-++..+.+++||..+.+....+
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG 34 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANG 34 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCC
Confidence 579999999999999999888876543
No 23
>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=61.27 E-value=17 Score=19.82 Aligned_cols=27 Identities=19% Similarity=0.447 Sum_probs=23.1
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+.++..+.+++||....+....+
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG 33 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGG 33 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESS
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCC
Confidence 579999999999999999988876544
No 24
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=57.20 E-value=19 Score=16.50 Aligned_cols=51 Identities=14% Similarity=0.047 Sum_probs=35.9
Q ss_pred EEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 7 LKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 7 ~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
+.. |..|+....+..++++++.. +..+.+. .......+.......|+.+..
T Consensus 2 lD~rG~~CP~Pvi~~kkal~~l~~---------G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~ 55 (69)
T cd03422 2 LDLRGEPCPYPAIATLEALPSLKP---------GEILEVISDCPQSINNIPIDARNHGYKVLA 55 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEecCchHHHHHHHHHHHcCCEEEE
Confidence 346 88999999999999987632 2233333 345677778888899998764
No 25
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=56.49 E-value=12 Score=13.99 Aligned_cols=34 Identities=38% Similarity=0.848 Sum_probs=24.2
Q ss_pred EE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCE
Q 043507 8 KV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQK 41 (88)
Q Consensus 8 ~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~ 41 (88)
.+ ++.|..|...+...+....++......+....
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGK 37 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCE
Confidence 35 77899999998888777777665555554444
No 26
>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=53.81 E-value=21 Score=19.39 Aligned_cols=27 Identities=19% Similarity=0.379 Sum_probs=22.3
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+-++..+..++||..+.+....+
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG 33 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGG 33 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCC
Confidence 579999999999999999888775443
No 27
>COG4837 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.66 E-value=9.7 Score=19.08 Aligned_cols=19 Identities=32% Similarity=0.580 Sum_probs=13.4
Q ss_pred CceEEEEEE-c--ccchhhHHH
Q 043507 1 MSQTVVLKV-D--MSCEGCYGA 19 (88)
Q Consensus 1 ~~~~~~~~~-~--~~c~~c~~~ 19 (88)
|++.+.+.+ | ..|.+|++.
T Consensus 1 M~~~~~l~VyGae~iCASCV~a 22 (106)
T COG4837 1 MVNEAKLVVYGAEVICASCVNA 22 (106)
T ss_pred CCceeEEEEecchhhhHHhcCC
Confidence 667677777 6 449999864
No 28
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=53.07 E-value=22 Score=16.00 Aligned_cols=50 Identities=14% Similarity=0.287 Sum_probs=33.5
Q ss_pred EEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 7 LKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 7 ~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
+.+ |+.|+.......+++ ++.. ++.+.+. .+.....+.......|+.+..
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~ 54 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSV 54 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEE
Confidence 356 889999999999988 4321 2233333 333456778888889998753
No 29
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=50.68 E-value=26 Score=16.02 Aligned_cols=52 Identities=12% Similarity=0.113 Sum_probs=36.3
Q ss_pred EEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 043507 7 LKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAFW 67 (88)
Q Consensus 7 ~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (88)
+.. |..|+.......+.+.+++. +..+.+. .+.....+.......|+.+...
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEE
Confidence 346 88999999999999987632 2233333 3446777888888999987643
No 30
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=48.39 E-value=24 Score=20.47 Aligned_cols=27 Identities=19% Similarity=0.426 Sum_probs=23.1
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+.++..+.+++||....+....+
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG 78 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGG 78 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCC
Confidence 679999999999999999988876643
No 31
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=43.85 E-value=33 Score=15.32 Aligned_cols=51 Identities=14% Similarity=0.160 Sum_probs=35.0
Q ss_pred EEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 7 LKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 7 ~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
+.. |+.|+.....+.+++.+++. ...+.+. .......+...+...|+.+..
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~ 55 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHEVLE 55 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCEEEE
Confidence 356 88999999999999887532 2233333 234577778888899998654
No 32
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=42.44 E-value=23 Score=20.04 Aligned_cols=27 Identities=22% Similarity=0.394 Sum_probs=22.8
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+-++..+.+++||..+.+....+
T Consensus 15 gGCFWg~E~~f~~l~GV~~t~vGYagG 41 (186)
T PRK13014 15 GGCFWGVEGVFQHVPGVVSVVSGYSGG 41 (186)
T ss_pred cCCceeeHHHHccCCCEEEEEeeecCC
Confidence 578999999999999999988876554
No 33
>KOG2990 consensus C2C2-type Zn-finger protein [Function unknown]
Probab=39.60 E-value=23 Score=21.54 Aligned_cols=20 Identities=15% Similarity=0.569 Sum_probs=15.5
Q ss_pred EEEEEE--cccchhhHHHHHHH
Q 043507 4 TVVLKV--DMSCEGCYGAVKRV 23 (88)
Q Consensus 4 ~~~~~~--~~~c~~c~~~i~~~ 23 (88)
.+.|.+ .++|.+|.+.|-..
T Consensus 44 vIRFEMPynIWC~gC~nhIgmG 65 (317)
T KOG2990|consen 44 VIRFEMPYNIWCDGCKNHIGMG 65 (317)
T ss_pred EEEEecccchhhccHHHhhhcc
Confidence 456777 78999999988654
No 34
>PF15644 Tox-PL: Papain fold toxin 1; PDB: 3B21_A.
Probab=31.60 E-value=52 Score=16.63 Aligned_cols=23 Identities=26% Similarity=0.368 Sum_probs=13.1
Q ss_pred cchhhHHHHHHHhhCCCCeeEEE
Q 043507 12 SCEGCYGAVKRVLGKMDGVETFD 34 (88)
Q Consensus 12 ~c~~c~~~i~~~~~~~~~~~~~~ 34 (88)
+|..|+..++..+.+.+-.....
T Consensus 2 NC~~C~~A~~~~l~G~~~~A~p~ 24 (111)
T PF15644_consen 2 NCQDCVVAVEARLRGYPVVAKPN 24 (111)
T ss_dssp --HHHHHHHHHHHTTS--B----
T ss_pred cchhhHHHHHHHhCCCCeecccc
Confidence 69999999999988655544333
No 35
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=30.13 E-value=92 Score=18.63 Aligned_cols=22 Identities=27% Similarity=0.409 Sum_probs=17.3
Q ss_pred hHHHHHHHhhCCCCeeEEEEEc
Q 043507 16 CYGAVKRVLGKMDGVETFDIDL 37 (88)
Q Consensus 16 c~~~i~~~~~~~~~~~~~~~~~ 37 (88)
-.+++++.++.++||..+++..
T Consensus 110 ~eQ~le~tLs~mDGVi~ArV~I 131 (246)
T COG4669 110 KEQQLEQTLSKMDGVISARVHI 131 (246)
T ss_pred HHHHHHHHHHhcCceEEEEEEE
Confidence 3567899999999987776653
No 36
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=28.55 E-value=25 Score=16.05 Aligned_cols=15 Identities=20% Similarity=0.474 Sum_probs=5.5
Q ss_pred EEEEEE-cccchhhHH
Q 043507 4 TVVLKV-DMSCEGCYG 18 (88)
Q Consensus 4 ~~~~~~-~~~c~~c~~ 18 (88)
.+.|.+ |+-|.+|..
T Consensus 41 ~v~fH~lg~KC~~C~S 56 (61)
T PF14599_consen 41 EVPFHFLGHKCSHCGS 56 (61)
T ss_dssp EEE--TT----TTTS-
T ss_pred ceeeeHhhhcCCCCCC
Confidence 356777 888888853
No 37
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=27.83 E-value=76 Score=19.39 Aligned_cols=27 Identities=22% Similarity=0.432 Sum_probs=22.9
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+.++..+..++||..+.+-...+
T Consensus 134 gGCFWg~E~~F~~~~GV~~t~vGYagG 160 (283)
T PRK05550 134 GGCFWGVEYYFKKLPGVLSVESGYTGG 160 (283)
T ss_pred cCCchhhhhhHhhCcCEEEEEEeeCCC
Confidence 679999999999999999888876544
No 38
>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]
Probab=27.71 E-value=46 Score=19.82 Aligned_cols=15 Identities=13% Similarity=0.390 Sum_probs=11.6
Q ss_pred cccchhhHHHHHHHh
Q 043507 10 DMSCEGCYGAVKRVL 24 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~ 24 (88)
.++|++|..++...+
T Consensus 22 ~lnC~HCg~~~L~~M 36 (275)
T COG1856 22 SLNCPHCGRHYLEHM 36 (275)
T ss_pred EecChHHHHHHHHHh
Confidence 467999999876653
No 39
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=27.39 E-value=1.5e+02 Score=19.96 Aligned_cols=27 Identities=19% Similarity=0.394 Sum_probs=23.0
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+-++..+.+++||..+.+....+
T Consensus 205 gGCFWg~e~~f~~~~GV~~t~~GYagG 231 (521)
T PRK14018 205 GGCFWGLEAYFQRIDGVVDAVSGYANG 231 (521)
T ss_pred cCCchhhHHHHccCCCEEEEEEeeCCC
Confidence 679999999999999999888876554
No 40
>KOG1635 consensus Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=26.92 E-value=99 Score=17.58 Aligned_cols=27 Identities=19% Similarity=0.438 Sum_probs=22.4
Q ss_pred hhhHHHHHHHhhCCCCeeEEEEEcCCC
Q 043507 14 EGCYGAVKRVLGKMDGVETFDIDLKEQ 40 (88)
Q Consensus 14 ~~c~~~i~~~~~~~~~~~~~~~~~~~~ 40 (88)
.+|.+.++.+...++||....+....+
T Consensus 31 ~GCFWg~E~a~~~l~gV~~T~vGYagG 57 (191)
T KOG1635|consen 31 AGCFWGVELAYQRLPGVVRTEVGYAGG 57 (191)
T ss_pred ccchhhHHHHHhhcCCeEEEeecccCC
Confidence 578999999999999988888775544
No 41
>PRK10509 bacterioferritin-associated ferredoxin; Provisional
Probab=25.79 E-value=62 Score=14.77 Aligned_cols=17 Identities=24% Similarity=0.565 Sum_probs=13.4
Q ss_pred cccchhhHHHHHHHhhC
Q 043507 10 DMSCEGCYGAVKRVLGK 26 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~~~ 26 (88)
|-.|.+|...+.+.+..
T Consensus 36 g~~CG~C~~~i~~il~~ 52 (64)
T PRK10509 36 GNQCGKCIRAAREVMQD 52 (64)
T ss_pred CCCccchHHHHHHHHHH
Confidence 56799999998887654
No 42
>TIGR03527 selenium_YedF selenium metabolism protein YedF. Members of this protein family are about 200 amino acids in size, and include the uncharacterized YedF protein of Escherichia coli. This family shares an N-terminal domain, modeled by pfam01206, with the sulfurtransferase TusA (also called SirA). The C-terminal domain includes a typical redox-active disulfide motif, CGXC. This protein family found only among those genomes that also carry the selenium donor protein SelD, and its connection to selenium metabolism is indicated by the method of partial phylogenetic profiling vs. SelD. Its gene typically is found next to selD. Members of this family are found even when selenocysteine and selenouridine biosynthesis pathways are, except for SelD, completely absent, as in Enterococcus faecalis. Its role in selenium metabolism is unclear, but may include either detoxification or a role in labile selenoprotein biosynthesis.
Probab=25.46 E-value=1.4e+02 Score=17.02 Aligned_cols=48 Identities=17% Similarity=0.237 Sum_probs=33.4
Q ss_pred cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 043507 10 DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKAGKKTAF 66 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (88)
|..|+.......+++.+++. .+.+.+. .+.....+.......||.+..
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~~~G~~v~~ 54 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFATSLGYEVEV 54 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEE
Confidence 78899999999999987642 1223322 344566777778888887754
No 43
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=25.20 E-value=1.4e+02 Score=16.96 Aligned_cols=40 Identities=10% Similarity=0.185 Sum_probs=28.7
Q ss_pred CceEEEEEE-cccchhhHHHHHHHhhCCCC-eeEEEEEcCCC
Q 043507 1 MSQTVVLKV-DMSCEGCYGAVKRVLGKMDG-VETFDIDLKEQ 40 (88)
Q Consensus 1 ~~~~~~~~~-~~~c~~c~~~i~~~~~~~~~-~~~~~~~~~~~ 40 (88)
|++...+.+ |...++-+..+.+.+....+ +...+...-.+
T Consensus 5 m~~~lviTviG~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg 46 (190)
T PRK11589 5 SQHYLVITALGADRPGIVNTITRHVSSCGCNIEDSRLAMLGE 46 (190)
T ss_pred cccEEEEEEEcCCCChHHHHHHHHHHHcCCCeeehhhHhhCC
Confidence 566788899 99999999999998887655 43333333333
No 44
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=24.33 E-value=64 Score=13.14 Aligned_cols=13 Identities=23% Similarity=0.708 Sum_probs=9.5
Q ss_pred ccchhhHHHHHHH
Q 043507 11 MSCEGCYGAVKRV 23 (88)
Q Consensus 11 ~~c~~c~~~i~~~ 23 (88)
.+|+.|.....+.
T Consensus 24 fCC~tC~~~fk~k 36 (37)
T PF08394_consen 24 FCCPTCLSQFKKK 36 (37)
T ss_pred EECHHHHHHHHhh
Confidence 5688898876653
No 45
>PF10825 DUF2752: Protein of unknown function (DUF2752); InterPro: IPR021215 This family is conserved in bacteria. Many members are annotated as being putative membrane proteins.
Probab=24.24 E-value=26 Score=15.28 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=9.4
Q ss_pred EE-cccchhhHHH
Q 043507 8 KV-DMSCEGCYGA 19 (88)
Q Consensus 8 ~~-~~~c~~c~~~ 19 (88)
.+ |..|++|...
T Consensus 6 ~ltG~~CPgCG~t 18 (52)
T PF10825_consen 6 ALTGIPCPGCGMT 18 (52)
T ss_pred hhhCCCCCCCcHH
Confidence 35 8889999876
No 46
>PF12156 ATPase-cat_bd: Putative metal-binding domain of cation transport ATPase; InterPro: IPR021993 This domain is found in bacteria, and is approximately 90 amino acids in length. It is found associated with PF00403 from PFAM, PF00122 from PFAM, PF00702 from PFAM. The cysteine-rich nature and composition suggest this might be a cation-binding domain; most members are annotated as being cation transport ATPases.
Probab=23.95 E-value=83 Score=15.35 Aligned_cols=17 Identities=18% Similarity=0.557 Sum_probs=13.0
Q ss_pred cccchhhHHHHHHHhhC
Q 043507 10 DMSCEGCYGAVKRVLGK 26 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~~~ 26 (88)
.++|.+|....+-+...
T Consensus 26 ~FCC~GC~~V~~~i~~~ 42 (88)
T PF12156_consen 26 PFCCPGCQAVYQLIHEN 42 (88)
T ss_pred ccccHHHHHHHHHHHHc
Confidence 47899999887776554
No 47
>PF09122 DUF1930: Domain of unknown function (DUF1930); InterPro: IPR015206 This entry represents a domain found in 3-mercaptopyruvate sulphurtransferase which has no known function. This domain adopts a structure consisting of a four-stranded antiparallel beta-sheet and an alpha-helix, arranged in a beta(2)-alpha-beta(2) fashion, and bearing a remarkable structural similarity to the FK506-binding protein class of peptidylprolyl cis/trans-isomerase []. ; PDB: 1OKG_A.
Probab=23.03 E-value=98 Score=14.34 Aligned_cols=39 Identities=23% Similarity=0.152 Sum_probs=23.5
Q ss_pred EEEEE-cccchhhHHHHHHHhhCCCCeeEEEEEcCCCEEE
Q 043507 5 VVLKV-DMSCEGCYGAVKRVLGKMDGVETFDIDLKEQKVT 43 (88)
Q Consensus 5 ~~~~~-~~~c~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~ 43 (88)
..+.+ |.-|.+....+..++..+.-.....+.+-++++.
T Consensus 21 ~tl~vDg~~v~~PD~El~sA~~HlH~GEkA~V~FkS~Rv~ 60 (68)
T PF09122_consen 21 ATLIVDGEIVENPDAELKSALVHLHIGEKAQVFFKSQRVA 60 (68)
T ss_dssp --EEETTEEESS--HHHHHHHTT-BTT-EEEEEETTS-EE
T ss_pred eEEEEcCeEcCCCCHHHHHHHHHhhcCceeEEEEecCcEE
Confidence 45667 7778888888888777766666677777777654
No 48
>PF01514 YscJ_FliF: Secretory protein of YscJ/FliF family; InterPro: IPR006182 This domain is found in proteins that are related to the YscJ lipoprotein, where it covers most of the sequence, and the flagellar M-ring protein FliF, where it covers the N-terminal region. The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flagellar proteins, based on the similarity to YscJ proteins [].; PDB: 1YJ7_A 2Y9J_d.
Probab=22.73 E-value=1.7e+02 Score=16.85 Aligned_cols=21 Identities=33% Similarity=0.650 Sum_probs=17.3
Q ss_pred HHHHHHHhhCCCCeeEEEEEc
Q 043507 17 YGAVKRVLGKMDGVETFDIDL 37 (88)
Q Consensus 17 ~~~i~~~~~~~~~~~~~~~~~ 37 (88)
...+++.++.++||..+++++
T Consensus 117 e~eL~~tI~~i~gV~~A~V~l 137 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVHL 137 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEEE
T ss_pred HHHHHHHHHcCCCeeEEEEEE
Confidence 456788899999999998873
No 49
>PF04324 Fer2_BFD: BFD-like [2Fe-2S] binding domain; InterPro: IPR007419 The two Fe ions are each coordinated by two conserved cysteine residues. This domain occurs alone in small proteins such as bacterioferritin-associated ferredoxin (BFD, P13655 from SWISSPROT). The function of BFD is not known, but it may be a general redox and/or regulatory component involved in the iron storage or mobilisation functions of bacterioferritin in bacteria []. This domain is also found in nitrate reductase proteins in association with the nitrite and sulphite reductase 4Fe-4S domain (IPR006067 from INTERPRO), nitrite/sulphite reductase ferredoxin-like half domain (IPR005117 from INTERPRO) and pyridine nucleotide-disulphide oxidoreductase (IPR001327 from INTERPRO). It is also found in NifU nitrogen fixation proteins, in association with NifU-like N-terminal domain (IPR002871 from INTERPRO) and C-terminal domain (IPR001075 from INTERPRO).; PDB: 2HU9_A.
Probab=22.65 E-value=37 Score=14.65 Aligned_cols=16 Identities=31% Similarity=0.675 Sum_probs=2.5
Q ss_pred cccchhhHHHHHHHhh
Q 043507 10 DMSCEGCYGAVKRVLG 25 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~~ 25 (88)
|..|.+|...+...|.
T Consensus 37 g~~Cg~C~~~v~~ll~ 52 (55)
T PF04324_consen 37 GTGCGSCVPEVKDLLA 52 (55)
T ss_dssp SS-TH-----------
T ss_pred CCCCCCcccccccccc
Confidence 4557777776665543
No 50
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=21.16 E-value=78 Score=16.11 Aligned_cols=17 Identities=29% Similarity=0.587 Sum_probs=14.0
Q ss_pred cccchhhHHHHHHHhhC
Q 043507 10 DMSCEGCYGAVKRVLGK 26 (88)
Q Consensus 10 ~~~c~~c~~~i~~~~~~ 26 (88)
-..|..|...+.+.|..
T Consensus 18 ~~qC~~cA~Al~~~L~~ 34 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQ 34 (100)
T ss_pred ceehHHHHHHHHHHHHH
Confidence 35699999999998765
No 51
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=20.38 E-value=1.8e+02 Score=16.59 Aligned_cols=21 Identities=19% Similarity=0.395 Sum_probs=16.7
Q ss_pred HHHHHHHhhCCCCeeEEEEEc
Q 043507 17 YGAVKRVLGKMDGVETFDIDL 37 (88)
Q Consensus 17 ~~~i~~~~~~~~~~~~~~~~~ 37 (88)
.+.+.+.++.+++|..+++++
T Consensus 109 e~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 109 EQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHhcCCeeeeEEEE
Confidence 456778899999999888774
No 52
>PF02061 Lambda_CIII: Lambda Phage CIII; InterPro: IPR013056 Bacteriophage lambda regulatory protein CIII is a small protein that plays a role in stabilising the CII transcriptional activator, via a mechanism that is not yet fully understood [, ]. Stabilised CII activates CI, the gene for the repressor protein that prevents transcription of proteins required for lytic development. The central portion of the protein is well conserved and is both necessary and sufficient for the activity of the protein []. Comparative analysis of the CIII sequence in lambda, Bacteriophage HK022 and the lambdoid Enterobacteria phage P22 has led to the suggestion that this central region assumes an amphipathic alpha-helical structure []. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=20.24 E-value=50 Score=13.81 Aligned_cols=18 Identities=11% Similarity=0.207 Sum_probs=10.6
Q ss_pred EEEE-cccchhhHHHHHHH
Q 043507 6 VLKV-DMSCEGCYGAVKRV 23 (88)
Q Consensus 6 ~~~~-~~~c~~c~~~i~~~ 23 (88)
.|.+ |..|.+|.+-.+..
T Consensus 2 ~~~~AG~~~~G~~ql~ESL 20 (45)
T PF02061_consen 2 QYAIAGWPRMGCPQLSESL 20 (45)
T ss_pred eeeecCccccCCchhhHHH
Confidence 3566 77777777444443
Done!