Query psy2429
Match_columns 108
No_of_seqs 106 out of 376
Neff 5.0
Searched_HMMs 46136
Date Sat Aug 17 00:42:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2429.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2429hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1668|consensus 100.0 4E-39 8.6E-44 250.6 6.8 102 7-108 129-230 (231)
2 cd00292 EF1B Elongation factor 100.0 7.7E-37 1.7E-41 207.9 11.8 86 21-107 1-86 (88)
3 PRK00435 ef1B elongation facto 100.0 1E-36 2.2E-41 207.7 10.9 85 22-107 2-86 (88)
4 PF00736 EF1_GNE: EF-1 guanine 100.0 8.9E-35 1.9E-39 197.9 11.5 85 23-107 1-87 (89)
5 TIGR00489 aEF-1_beta translati 100.0 2.1E-34 4.7E-39 196.2 10.8 85 22-107 2-86 (88)
6 COG2092 EFB1 Translation elong 100.0 8E-32 1.7E-36 183.7 10.4 85 22-107 2-86 (88)
7 PF03927 NapD: NapD protein; 78.9 10 0.00023 24.8 5.9 67 24-105 6-73 (79)
8 PRK04435 hypothetical protein; 67.1 12 0.00025 27.1 4.3 76 26-106 70-146 (147)
9 cd04888 ACT_PheB-BS C-terminal 65.0 28 0.00061 21.0 5.7 37 67-104 39-75 (76)
10 PRK10553 assembly protein for 63.4 43 0.00094 22.5 6.5 68 24-105 8-76 (87)
11 PF10105 DUF2344: Uncharacteri 51.9 86 0.0019 23.6 6.8 66 28-95 64-133 (187)
12 TIGR03116 cas_csf3 CRISPR-asso 48.2 6.3 0.00014 30.9 0.1 42 30-71 39-80 (214)
13 COG4492 PheB ACT domain-contai 45.1 46 0.001 24.9 4.3 77 27-107 74-150 (150)
14 PF13291 ACT_4: ACT domain; PD 39.2 93 0.002 19.2 6.1 53 48-102 26-79 (80)
15 PRK11169 leucine-responsive tr 36.1 1.6E+02 0.0035 21.1 6.4 64 40-105 43-110 (164)
16 PRK06901 aspartate-semialdehyd 34.5 2.2E+02 0.0048 23.6 7.1 71 24-102 188-260 (322)
17 PRK11152 ilvM acetolactate syn 33.3 1.4E+02 0.003 19.5 4.8 31 71-103 45-75 (76)
18 PRK06728 aspartate-semialdehyd 33.0 2.1E+02 0.0044 23.8 6.8 76 24-102 199-283 (347)
19 PF02680 DUF211: Uncharacteriz 32.0 1.8E+02 0.0038 20.2 8.8 72 26-104 7-80 (95)
20 PRK11179 DNA-binding transcrip 31.6 1.9E+02 0.0041 20.5 6.7 65 38-105 36-103 (153)
21 PF08609 Fes1: Nucleotide exch 31.6 11 0.00024 25.5 -0.7 28 76-103 61-88 (92)
22 COG3978 Acetolactate synthase 29.2 1.5E+02 0.0032 20.3 4.4 28 79-107 52-79 (86)
23 PF14790 THDPS_N: Tetrahydrodi 27.4 99 0.0021 23.6 3.7 27 41-73 2-29 (167)
24 PRK08577 hypothetical protein; 27.0 2.2E+02 0.0048 19.8 10.2 81 23-107 54-135 (136)
25 PRK10665 nitrogen regulatory p 26.9 2.2E+02 0.0048 19.7 5.5 52 39-93 13-79 (112)
26 PF08478 POTRA_1: POTRA domain 26.1 31 0.00067 20.7 0.7 26 82-108 34-60 (69)
27 PF00403 HMA: Heavy-metal-asso 25.1 82 0.0018 18.4 2.4 22 82-104 11-32 (62)
28 PF04991 LicD: LicD family; I 24.7 26 0.00055 25.3 0.1 10 30-39 24-33 (205)
29 COG1685 Archaeal shikimate kin 24.2 1.5E+02 0.0032 24.4 4.4 35 36-70 48-87 (278)
30 PF01883 DUF59: Domain of unkn 23.5 86 0.0019 19.2 2.4 34 69-103 34-72 (72)
31 COG2608 CopZ Copper chaperone 22.9 93 0.002 19.5 2.5 22 82-104 15-36 (71)
32 PRK10858 nitrogen regulatory p 21.2 2.9E+02 0.0063 19.1 5.4 53 39-93 13-79 (112)
33 COG4668 MtlA Mannitol/fructose 20.8 67 0.0015 23.8 1.6 21 50-70 80-100 (142)
No 1
>KOG1668|consensus
Probab=100.00 E-value=4e-39 Score=250.62 Aligned_cols=102 Identities=54% Similarity=0.872 Sum_probs=99.0
Q ss_pred hhhhcCCCCCCcccceeeeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhH
Q psy2429 7 YKLFLLPSHVEPALIAKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDA 86 (108)
Q Consensus 7 ~~~~~~kk~~k~~~~aKs~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~ 86 (108)
+.+|+.||++|+.+++||+|+|+|||||+||||.+|+.+||+|+|+||.||.++++|||||||+|||+|+|+||+||+|.
T Consensus 129 la~y~~kka~k~~~iakssvlLdvkpwddeTdm~~~e~~vrsi~~~gl~wgasklvpvGygikKlqi~~vveddkvs~D~ 208 (231)
T KOG1668|consen 129 LAAYAAKKAKKPPPIAKSSVLLDVKPWDDETDMKELEECVRSIEMDGLVWGASKLVPVGYGIKKLQIQCVVEDDKVSIDD 208 (231)
T ss_pred hhhhhHHhccCCcccccceEEeecCCcCCCCCHHHHHHHHHHhhhccceeccccccccccceeeEEEEEEEEcCccccch
Confidence 57899999999777999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCceeEEeeeeCC
Q psy2429 87 LQESIQDIEDYVSLVFLKCVPN 108 (108)
Q Consensus 87 lee~i~~~ed~VqSvdI~~~~~ 108 (108)
++|.|..+||+||||||.+||.
T Consensus 209 l~e~i~~~e~~Vqs~di~afnk 230 (231)
T KOG1668|consen 209 LIEEITKFEDHVQSVDIAAFNK 230 (231)
T ss_pred hHHHhhhhhcceeeehhhhccc
Confidence 9999999999999999999983
No 2
>cd00292 EF1B Elongation factor 1 beta (EF1B) guanine nucleotide exchange domain. EF1B catalyzes the exchange of GDP bound to the G-protein, EF1A, for GTP, an important step in the elongation cycle of the protein biosynthesis. EF1A binds to and delivers the aminoacyl tRNA to the ribosome. The guanine nucleotide exchange domain of EF1B, which is the alpha subunit in yeast, is responsible for the catalysis of this exchange reaction.
Probab=100.00 E-value=7.7e-37 Score=207.95 Aligned_cols=86 Identities=50% Similarity=0.867 Sum_probs=83.4
Q ss_pred ceeeeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCcee
Q psy2429 21 IAKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSL 100 (108)
Q Consensus 21 ~aKs~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqS 100 (108)
.|||+++|+|||||+||||++|+++||+++++||.||+++++||||||+|||+.|+|+|++||||+|+++|++++ +|||
T Consensus 1 mak~~vvl~V~P~~~e~Dl~~l~~~Ik~~~~~gl~~~~~~~epiaFGlk~L~i~~vv~D~~~~td~lee~i~~~d-~Vqs 79 (88)
T cd00292 1 MAKSLVVLKVKPWDDEVDLDELEEKIRAILMDGLLWGKSKLEPIAFGLKALQIYCVVEDDEGGTDELEEAISEED-GVQS 79 (88)
T ss_pred CceEEEEEEEecCCCCcCHHHHHHHHHHhCcCCcEEEEEEEEEeeeEeeEEEEEEEEEeCCcCcHHHHHHHhccC-CceE
Confidence 379999999999999999999999999999999999999999999999999999999999999999999999975 8999
Q ss_pred EEeeeeC
Q psy2429 101 VFLKCVP 107 (108)
Q Consensus 101 vdI~~~~ 107 (108)
|||++|+
T Consensus 80 veI~~~~ 86 (88)
T cd00292 80 VDVEAFN 86 (88)
T ss_pred EEEEEEE
Confidence 9999996
No 3
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=100.00 E-value=1e-36 Score=207.68 Aligned_cols=85 Identities=19% Similarity=0.407 Sum_probs=83.1
Q ss_pred eeeeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeE
Q psy2429 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101 (108)
Q Consensus 22 aKs~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSv 101 (108)
++++++|+|||||+||||++|+++||+++++||.||+++++||||||++||++|+|+|++||||+|+|+|++||| |||+
T Consensus 2 ~~v~vv~~V~P~d~e~Dl~~L~~~ik~~~~~g~~~~~~~~ePIaFGLkaL~i~~vv~D~~~~td~lee~i~~~e~-Vqsv 80 (88)
T PRK00435 2 GDVLAVLKVMPESPEVDLDELKEKIKEVLPEGYKINGIEEEPIAFGLKALKLYVIMPDEEGGTEPVEEAFANVEG-VESV 80 (88)
T ss_pred ceEEEEEEECCCCCCcCHHHHHHHHHHhCcCCcEEeEeEEEEeeccceeEEEEEEEEcCCcCcHHHHHHHhccCC-CcEE
Confidence 689999999999999999999999999999999999999999999999999999999999999999999999996 9999
Q ss_pred EeeeeC
Q psy2429 102 FLKCVP 107 (108)
Q Consensus 102 dI~~~~ 107 (108)
||++|.
T Consensus 81 ei~~~~ 86 (88)
T PRK00435 81 EVEEVS 86 (88)
T ss_pred EEEEEe
Confidence 999985
No 4
>PF00736 EF1_GNE: EF-1 guanine nucleotide exchange domain; InterPro: IPR014038 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents the guanine nucleotide exchange domain of the beta (EF-1beta, also known as EF1B-alpha) and delta (EF-1delta, also known as EF1B-beta) chains of EF1B proteins from eukaryotes and archaea. The beta and delta chains have exchange activity, which mainly resides in their homologous guanine nucleotide exchange domains, found in the C-terminal region of the peptides. Their N-terminal regions may be involved in interactions with the gamma chain (EF-1gamma). More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 2YY3_B 1GH8_A 1B64_A 1IJE_B 1IJF_B 1F60_B 1G7C_B 2B7B_B 2B7C_B.
Probab=100.00 E-value=8.9e-35 Score=197.95 Aligned_cols=85 Identities=48% Similarity=0.869 Sum_probs=79.0
Q ss_pred eeeEEEEEeeCCCccCHHHHHHHH-HhhhcCCeeEe-eeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCcee
Q psy2429 23 KSNIILDVKPWGDDTDMKEMEKQV-RAIQMDGLLWG-ASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSL 100 (108)
Q Consensus 23 Ks~vvl~VkP~d~etDl~~L~~~I-r~i~~eGl~wg-~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqS 100 (108)
||+++|+|||||+||||++|+++| |++.++|+.|| +++++||||||++|++.|+|+|++||+|+|+++|.+++++|||
T Consensus 1 ks~vv~~V~P~d~e~Dl~~l~~~Ik~~i~~~gl~w~~~~~~epIaFGlk~L~v~~vv~D~~~~~d~lee~i~~~~e~Vqs 80 (89)
T PF00736_consen 1 KSSVVLKVKPWDDETDLEKLEKKIKRKIPMEGLKWGEKSKEEPIAFGLKALQVSCVVEDDEGSTDDLEEAIESFEEGVQS 80 (89)
T ss_dssp EEEEEEEEEESSTTS-HHHHHHHHHHHS-TTTEEEEEEEEEEEECTTEEEEEEEEEECTTTCGHHHHHHHHTTCTTTEEE
T ss_pred CceEEEEEeeCCCcccHHHHHHHHHHhchhcceeeeeeeeeeeecccEEEEEEEEEEEcCccChHHHHHHHHhcCCCccE
Confidence 789999999999999999999999 68999999999 7999999999999999999999999999999999666679999
Q ss_pred EEeeeeC
Q psy2429 101 VFLKCVP 107 (108)
Q Consensus 101 vdI~~~~ 107 (108)
|||++|+
T Consensus 81 vei~~~~ 87 (89)
T PF00736_consen 81 VEIESFN 87 (89)
T ss_dssp EEEEEEE
T ss_pred EEEEEEE
Confidence 9999996
No 5
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=100.00 E-value=2.1e-34 Score=196.24 Aligned_cols=85 Identities=21% Similarity=0.302 Sum_probs=83.1
Q ss_pred eeeeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeE
Q psy2429 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101 (108)
Q Consensus 22 aKs~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSv 101 (108)
||++++|+|||||+|+||++|+++||+++++|+.|++++.+||||||++|++.|+|+|++||||+||++|++|| +|||+
T Consensus 2 ~~v~~~~kV~P~s~evDle~L~~~ik~~~~~g~~~~~~~~ePiaFGLkaL~~~~vv~D~~g~td~lee~i~~ve-~V~sv 80 (88)
T TIGR00489 2 GDVVAKIKVMPESPDVDLEALKEKIKERIPEGVEIRKIDEEPIAFGLVAINVMVVMGDAEGGTEAAEESLSGIE-GVESV 80 (88)
T ss_pred ceEEEEEEECCCCCccCHHHHHHHHHHhCcCCcEEeeeEEEeeeccceeeEEEEEEecCCcChHHHHHHHhcCC-CccEE
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999998 69999
Q ss_pred EeeeeC
Q psy2429 102 FLKCVP 107 (108)
Q Consensus 102 dI~~~~ 107 (108)
+|++|.
T Consensus 81 ev~~~~ 86 (88)
T TIGR00489 81 EVTDVR 86 (88)
T ss_pred EEEEEE
Confidence 999985
No 6
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=8e-32 Score=183.65 Aligned_cols=85 Identities=28% Similarity=0.441 Sum_probs=82.3
Q ss_pred eeeeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeE
Q psy2429 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101 (108)
Q Consensus 22 aKs~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSv 101 (108)
|+++++|+|||||+|+||++|+++||+++|+|++|+++..+|||||||||++.|+|+|++||+|++|+.|+++| +|||+
T Consensus 2 ~~Vlv~lkV~P~d~evdl~~L~~~ik~~l~~g~~~~~~~~epIaFGLkal~l~vvv~D~Eg~td~~ee~l~~ve-gV~sv 80 (88)
T COG2092 2 ADVLVVLKVMPDDPEVDLEELEEKIKEKLPEGYELIKIEEEPIAFGLKALKLYVVVEDKEGGTDALEEALEEVE-GVESV 80 (88)
T ss_pred cceEEEEEecCCCCCCCHHHHHHHHHHhccccceeccceeEeeeeeeeeEEEEEEEcccccCcHHHHHHHhhcc-CcceE
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999998 69999
Q ss_pred EeeeeC
Q psy2429 102 FLKCVP 107 (108)
Q Consensus 102 dI~~~~ 107 (108)
+++++.
T Consensus 81 eve~vs 86 (88)
T COG2092 81 EVENVS 86 (88)
T ss_pred EEEEEE
Confidence 999874
No 7
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=78.88 E-value=10 Score=24.78 Aligned_cols=67 Identities=16% Similarity=0.213 Sum_probs=42.6
Q ss_pred eeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCC-CcChhHHHHHHHhcCCCceeEE
Q psy2429 24 SNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDD-LVSVDALQESIQDIEDYVSLVF 102 (108)
Q Consensus 24 s~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd-~~~~d~lee~i~~~ed~VqSvd 102 (108)
|++++..+|. .++.+.+.+. ..+|+.+...... | ++.+++|.+ ....-+.-+.|+.++ ||-|+.
T Consensus 6 ss~vV~~~p~----~~~~v~~~l~--~~~gvEVh~~~~~--G------KiVVtiE~~~~~~~~~~~~~i~~l~-GVlsa~ 70 (79)
T PF03927_consen 6 SSLVVHARPE----RLEEVAEALA--AIPGVEVHAVDED--G------KIVVTIEAESSEEEVDLIDAINALP-GVLSAS 70 (79)
T ss_dssp EEEEEEE-CC----CHHHHHHHHC--CSTTEEEEEEETT--T------EEEEEEEESSHHHHHHHHHHHCCST-TEEEEE
T ss_pred EEEEEEECch----hHHHHHHHHH--cCCCcEEEeeCCC--C------eEEEEEEeCChHHHHHHHHHHHcCC-CceEEE
Confidence 7889999994 5666555554 3468888765442 2 467778754 233444455567786 799887
Q ss_pred eee
Q psy2429 103 LKC 105 (108)
Q Consensus 103 I~~ 105 (108)
+..
T Consensus 71 lvY 73 (79)
T PF03927_consen 71 LVY 73 (79)
T ss_dssp ESS
T ss_pred EEE
Confidence 653
No 8
>PRK04435 hypothetical protein; Provisional
Probab=67.11 E-value=12 Score=27.10 Aligned_cols=76 Identities=18% Similarity=0.132 Sum_probs=44.3
Q ss_pred EEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeee-EeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeEEee
Q psy2429 26 IILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGAS-KLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLVFLK 104 (108)
Q Consensus 26 vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~-k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI~ 104 (108)
+.|.+.=.|..=-|.++...|.+. |...... ...|. =|.-.+.+.+.+.+.....++|.+.|.+++ +|.+|+|.
T Consensus 70 vtL~i~l~Dr~GlLs~Il~~IA~~---~aNIltI~q~i~~-~g~a~vs~tVevs~~~~~L~~Li~~L~~i~-gV~~V~i~ 144 (147)
T PRK04435 70 ITLSLLLEDRSGTLSKVLNVIAEA---GGNILTINQSIPL-QGRANVTISIDTSSMEGDIDELLEKLRNLD-GVEKVELI 144 (147)
T ss_pred EEEEEEEecCCCHHHHHHHHHHHc---CCCeEEEEEEcCC-CCEEEEEEEEEeCChHHHHHHHHHHHHcCC-CcEEEEEE
Confidence 344443333322366666666443 3333332 22232 244455555555555557889999999997 89999998
Q ss_pred ee
Q psy2429 105 CV 106 (108)
Q Consensus 105 ~~ 106 (108)
+.
T Consensus 145 ~~ 146 (147)
T PRK04435 145 GM 146 (147)
T ss_pred ec
Confidence 75
No 9
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=65.00 E-value=28 Score=20.97 Aligned_cols=37 Identities=27% Similarity=0.246 Sum_probs=26.6
Q ss_pred eeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeEEee
Q psy2429 67 GINKLQISCVVEDDLVSVDALQESIQDIEDYVSLVFLK 104 (108)
Q Consensus 67 GlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI~ 104 (108)
|...+.+.+.+.+.....+.+.+.|.+++ +|.+|.+.
T Consensus 39 ~~~~i~~~v~v~~~~~~l~~l~~~L~~i~-~V~~v~~~ 75 (76)
T cd04888 39 GRANVTISIDTSTMNGDIDELLEELREID-GVEKVELV 75 (76)
T ss_pred CeEEEEEEEEcCchHHHHHHHHHHHhcCC-CeEEEEEe
Confidence 54445555555554447788999999997 79999875
No 10
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=63.36 E-value=43 Score=22.54 Aligned_cols=68 Identities=21% Similarity=0.216 Sum_probs=43.0
Q ss_pred eeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCC-cChhHHHHHHHhcCCCceeEE
Q psy2429 24 SNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDL-VSVDALQESIQDIEDYVSLVF 102 (108)
Q Consensus 24 s~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~-~~~d~lee~i~~~ed~VqSvd 102 (108)
|++++..+|.. +..+.+.|. ..+|+.+.....+ .=++.++++.+. ...-+..+.|+.++ ||-|+.
T Consensus 8 sSlVV~~~Pe~----~~~V~~~l~--~ipg~Evh~~d~~-------~GKiVVtiE~~~~~~~~~~i~~I~~l~-GVlsa~ 73 (87)
T PRK10553 8 CSLVVQAKSER----ISDISTQLN--AFPGCEVAVSDAP-------SGQLIVVVEAEDSETLLQTIESVRNVE-GVLAVS 73 (87)
T ss_pred eEEEEEeChHH----HHHHHHHHH--cCCCcEEEeecCC-------CCeEEEEEEeCChHHHHHHHHHHHcCC-CceEEE
Confidence 78889999975 555555554 3468887765221 014667777642 22334456678886 899998
Q ss_pred eee
Q psy2429 103 LKC 105 (108)
Q Consensus 103 I~~ 105 (108)
+..
T Consensus 74 lVY 76 (87)
T PRK10553 74 LVY 76 (87)
T ss_pred EEE
Confidence 764
No 11
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function.
Probab=51.94 E-value=86 Score=23.59 Aligned_cols=66 Identities=18% Similarity=0.204 Sum_probs=42.4
Q ss_pred EEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeee-eeeeEE--E-EEEEeCCCcChhHHHHHHHhcC
Q psy2429 28 LDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAY-GINKLQ--I-SCVVEDDLVSVDALQESIQDIE 95 (108)
Q Consensus 28 l~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaF-GlkkLq--i-~~vveDd~~~~d~lee~i~~~e 95 (108)
++|.-.. ++|.+++.+++...+|+|+.+.+....|... .+.++. . +.+..+ ....+.+++.++.|-
T Consensus 64 ~di~l~~-~~~~~~~~~rLn~~lP~Gl~i~~~~~i~~~~~sl~~~i~~~~Y~i~~~-~~~~~~~~~~~~~~~ 133 (187)
T PF10105_consen 64 MDIELEE-DIDPEEVLERLNAVLPEGLRILEAEEIPPKAPSLMALINAAEYRITLP-EIDEEELEEAIEAFL 133 (187)
T ss_pred EEEEEec-CCCHHHHHHHHHHhCCCCCEEEEEEEccCCCcchhhhcceEEEEEEec-CCCHHHHHHHHHHHH
Confidence 4444433 8899999999999999999999887665322 222211 1 111112 567777888877763
No 12
>TIGR03116 cas_csf3 CRISPR-associated protein, Csf3 family. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf3 (CRISPR/cas Subtype as in A. ferrooxidans protein 3), as it lies third closest to the repeats.
Probab=48.18 E-value=6.3 Score=30.95 Aligned_cols=42 Identities=31% Similarity=0.481 Sum_probs=27.5
Q ss_pred EeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeE
Q psy2429 30 VKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKL 71 (108)
Q Consensus 30 VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkL 71 (108)
.-||.+.-||.+..---|.-..++-.|.+++++++||+=+--
T Consensus 39 ~~p~g~~r~l~edlpl~k~e~~d~W~Wkas~l~v~~f~~~~~ 80 (214)
T TIGR03116 39 ADPWGDARDLSEDLPLGKEEEGDSWVWKASRLEVLAFLPYPK 80 (214)
T ss_pred cCcchhhhhhhcccCcccccCCCeEEEEecceeeeecCccce
Confidence 456666666554211123345678889999999999986643
No 13
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=45.11 E-value=46 Score=24.88 Aligned_cols=77 Identities=16% Similarity=0.106 Sum_probs=45.9
Q ss_pred EEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeEEeeee
Q psy2429 27 ILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLVFLKCV 106 (108)
Q Consensus 27 vl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI~~~ 106 (108)
+|.+.-.|--=-|.++.+.|-.-...=|+++. -.|+- |--...+.+-.---+..+|++.+.|.++| +|.-|+|.++
T Consensus 74 TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q--~ipl~-g~Anvtlsi~~ssm~~~V~~ii~kl~k~e-~V~kVeivgs 149 (150)
T COG4492 74 TLSLSLEDRVGILSDVLDVIAREEINVLTIHQ--TIPLQ-GRANVTLSIDTSSMEKDVDKIIEKLRKVE-GVEKVEIVGS 149 (150)
T ss_pred EEEEEEhhhhhhHHHHHHHHHHhCCcEEEEec--ccccC-ceeeEEEEEEchhhhhhHHHHHHHHhccc-ceeEEEEeec
Confidence 34444444444466666666554444455543 22331 22233333333333578999999999997 8999999876
Q ss_pred C
Q psy2429 107 P 107 (108)
Q Consensus 107 ~ 107 (108)
.
T Consensus 150 ~ 150 (150)
T COG4492 150 G 150 (150)
T ss_pred C
Confidence 3
No 14
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=39.16 E-value=93 Score=19.17 Aligned_cols=53 Identities=17% Similarity=0.209 Sum_probs=37.6
Q ss_pred hhhcCCeeEeeeEeeeee-eeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeEE
Q psy2429 48 AIQMDGLLWGASKLAPLA-YGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLVF 102 (108)
Q Consensus 48 ~i~~eGl~wg~~k~~PIa-FGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSvd 102 (108)
.+...|............ .|.-.+.+.+.|.| ..-.+.+.+.|.+++ +|.+|.
T Consensus 26 ~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d-~~~L~~ii~~L~~i~-~V~~V~ 79 (80)
T PF13291_consen 26 VISENGVNIRSINARTNKDDGTARITLTVEVKD-LEHLNQIIRKLRQIP-GVISVE 79 (80)
T ss_dssp HHHCSSSEEEEEEEEE--ETTEEEEEEEEEESS-HHHHHHHHHHHCTST-TEEEEE
T ss_pred HHHHCCCCeEEEEeEEeccCCEEEEEEEEEECC-HHHHHHHHHHHHCCC-CeeEEE
Confidence 345568888887776663 88888888888876 356667777788886 688764
No 15
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=36.06 E-value=1.6e+02 Score=21.07 Aligned_cols=64 Identities=17% Similarity=0.285 Sum_probs=39.1
Q ss_pred HHHHHHHHhhhcCCeeEe-eeEeee--eeeeeee-EEEEEEEeCCCcChhHHHHHHHhcCCCceeEEeee
Q psy2429 40 KEMEKQVRAIQMDGLLWG-ASKLAP--LAYGINK-LQISCVVEDDLVSVDALQESIQDIEDYVSLVFLKC 105 (108)
Q Consensus 40 ~~L~~~Ir~i~~eGl~wg-~~k~~P--IaFGlkk-Lqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI~~ 105 (108)
..+..+|+....+|.-++ ....-| +||++.+ +.+.|. .+.....+++.+.+..++ +|..|-..+
T Consensus 43 ~tv~~Ri~rL~~~GvI~~~~~~v~p~~lg~~~~a~v~i~~~-~~~~~~~~~~~~~l~~~p-~V~~~~~vt 110 (164)
T PRK11169 43 TPCLERVRRLERQGFIQGYTALLNPHYLDASLLVFVEITLN-RGAPDVFEQFNAAVQKLE-EIQECHLVS 110 (164)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEECHHHhCCCEEEEEEEEEc-CCChHHHHHHHHHHhcCc-ceeeeeeec
Confidence 445667777788899876 344444 4555544 223332 222334678888899997 688876543
No 16
>PRK06901 aspartate-semialdehyde dehydrogenase; Provisional
Probab=34.50 E-value=2.2e+02 Score=23.65 Aligned_cols=71 Identities=18% Similarity=0.218 Sum_probs=53.9
Q ss_pred eeEEEEEeeCCCccCHHHHHHHHHhhhcCCe-eEee-eEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeE
Q psy2429 24 SNIILDVKPWGDDTDMKEMEKQVRAIQMDGL-LWGA-SKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101 (108)
Q Consensus 24 s~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl-~wg~-~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSv 101 (108)
-.+-|.+.|.=+ +.|....|+|. +.+ .... +-.+|+-||- ..-+.+..++ ..+.+++.+.+++.+ +|.-+
T Consensus 188 ~~iAFNviP~ig----~~m~~EtrKIl-~~l~~VsaTcVRVPV~~GH-s~sV~ve~e~-~~~~e~~~~~l~~~~-gv~l~ 259 (322)
T PRK06901 188 QRLAFDVFPANA----QNLELQLQKIF-PQLENVTFHSIQVPVFYGL-AQMVTALSEY-ELDIESQLAEWQQNN-LLRYH 259 (322)
T ss_pred eeeeccccccCC----ccHHHHHHHHh-CCcccEEEEEEEcceeccE-EEEEEEEECC-CCCHHHHHHHHHhCC-CcEEe
Confidence 567788889876 33889999999 667 5554 7889999994 3445555544 699999999999986 67666
Q ss_pred E
Q psy2429 102 F 102 (108)
Q Consensus 102 d 102 (108)
|
T Consensus 260 d 260 (322)
T PRK06901 260 E 260 (322)
T ss_pred C
Confidence 5
No 17
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=33.34 E-value=1.4e+02 Score=19.50 Aligned_cols=31 Identities=19% Similarity=0.259 Sum_probs=23.7
Q ss_pred EEEEEEEeCCCcChhHHHHHHHhcCCCceeEEe
Q psy2429 71 LQISCVVEDDLVSVDALQESIQDIEDYVSLVFL 103 (108)
Q Consensus 71 Lqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI 103 (108)
-.+.+++. ++-..+.|..+|.++. .|-.|++
T Consensus 45 sriti~v~-~~~~i~ql~kQL~KL~-dV~~V~~ 75 (76)
T PRK11152 45 INIELTVA-SERPIDLLSSQLNKLV-DVAHVEI 75 (76)
T ss_pred EEEEEEEC-CCchHHHHHHHHhcCc-CeEEEEE
Confidence 34455554 6788999999999997 4888876
No 18
>PRK06728 aspartate-semialdehyde dehydrogenase; Provisional
Probab=33.03 E-value=2.1e+02 Score=23.82 Aligned_cols=76 Identities=22% Similarity=0.162 Sum_probs=53.6
Q ss_pred eeEEEEEeeCCCcc---C----HHHHHHHHHhhhc-CCeeEee-eEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhc
Q psy2429 24 SNIILDVKPWGDDT---D----MKEMEKQVRAIQM-DGLLWGA-SKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDI 94 (108)
Q Consensus 24 s~vvl~VkP~d~et---D----l~~L~~~Ir~i~~-eGl~wg~-~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ 94 (108)
-.+.+.+.||=+.. . =.++....|+|+. +.+.... +-.+|+-||- ..-+.+..+ ...+.+++.+.++++
T Consensus 199 ~~iafNviP~i~~~~~~g~t~EE~K~~~E~~KIL~~~~l~VsatcvRVPV~~gH-s~sv~ve~~-~~~~~~~~~~~l~~~ 276 (347)
T PRK06728 199 YPIAFNVLPQVDIFTDNDFTFEEVKMIQETKKILEDPNLKMAATCVRVPVISGH-SESVYIELE-KEATVAEIKEVLFDA 276 (347)
T ss_pred CceeccccCcCCccccCCccHHHHHHHHHHHHHhCCCCCcEEEEEEecceeccE-EEEEEEEEC-CCCCHHHHHHHHHcC
Confidence 56789999995432 1 2357778888883 5676665 7889999985 334444444 469999999999998
Q ss_pred CCCceeEE
Q psy2429 95 EDYVSLVF 102 (108)
Q Consensus 95 ed~VqSvd 102 (108)
+ +|.-+|
T Consensus 277 ~-gi~~~d 283 (347)
T PRK06728 277 P-GVILQD 283 (347)
T ss_pred C-CCEEeC
Confidence 6 666554
No 19
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=31.98 E-value=1.8e+02 Score=20.25 Aligned_cols=72 Identities=19% Similarity=0.404 Sum_probs=46.6
Q ss_pred EEEEE-eeCCCccCHHHHHHHHHhhhc-CCeeEeeeEeeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeEEe
Q psy2429 26 IILDV-KPWGDDTDMKEMEKQVRAIQM-DGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLVFL 103 (108)
Q Consensus 26 vvl~V-kP~d~etDl~~L~~~Ir~i~~-eGl~wg~~k~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI 103 (108)
++|+| || -+.++-++...+-+... +|.. ..+.. .-..-..+.++|+-+...-|+++++|+.+..-|-|+|=
T Consensus 7 lVLDVlKP--~~p~i~e~A~~l~~~~gV~gVn---itv~E--vD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSIDe 79 (95)
T PF02680_consen 7 LVLDVLKP--HEPSIVELAKALSELEGVDGVN---ITVVE--VDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSIDE 79 (95)
T ss_dssp EEEEEEEE--SSS-HHHHHHHHHTSTTEEEEE---EEEEE--E-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEEEE
T ss_pred EEEEeecC--CCCCHHHHHHHHHhCCCcceEE---EEEEE--eeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEeeee
Confidence 56665 67 77788888888876542 2221 22222 22344566778888889999999999999877888874
Q ss_pred e
Q psy2429 104 K 104 (108)
Q Consensus 104 ~ 104 (108)
.
T Consensus 80 V 80 (95)
T PF02680_consen 80 V 80 (95)
T ss_dssp E
T ss_pred e
Confidence 4
No 20
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=31.65 E-value=1.9e+02 Score=20.45 Aligned_cols=65 Identities=12% Similarity=0.306 Sum_probs=42.8
Q ss_pred CHHHHHHHHHhhhcCCeeEee-eEeee--eeeeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeEEeee
Q psy2429 38 DMKEMEKQVRAIQMDGLLWGA-SKLAP--LAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLVFLKC 105 (108)
Q Consensus 38 Dl~~L~~~Ir~i~~eGl~wg~-~k~~P--IaFGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSvdI~~ 105 (108)
.-..+..+|+..+.+|+-++- ...-| +||.+.++ +.+.+++ ....+++.+.|..++ +|..|-..+
T Consensus 36 S~~tV~~Ri~rL~~~GvI~~~~~~v~~~~lg~~~~a~-v~v~v~~-~~~~~~~~~~l~~~p-~V~~~~~~t 103 (153)
T PRK11179 36 SPGTIHVRVEKMKQAGIITGTRVDVNPKQLGYDVCCF-IGIILKS-AKDYPSALAKLESLD-EVVEAYYTT 103 (153)
T ss_pred CHHHHHHHHHHHHHCCCeeeEEEEECHHHcCCCEEEE-EEEEEcc-cccHHHHHHHHhCCC-CEEEEEEcc
Confidence 345677788888889999863 34444 56655542 3333432 235788999999998 688886543
No 21
>PF08609 Fes1: Nucleotide exchange factor Fes1; InterPro: IPR013918 Fes1 is a cytosolic homologue of Sls1, an ER protein which has nucleotide exchange factor activity. Fes1 in yeast has been shown to bind to the molecular chaperone Hsp70 and has adenyl-nucleotide exchange factor activity [].
Probab=31.63 E-value=11 Score=25.49 Aligned_cols=28 Identities=21% Similarity=0.299 Sum_probs=23.3
Q ss_pred EEeCCCcChhHHHHHHHhcCCCceeEEe
Q psy2429 76 VVEDDLVSVDALQESIQDIEDYVSLVFL 103 (108)
Q Consensus 76 vveDd~~~~d~lee~i~~~ed~VqSvdI 103 (108)
++.+...+.|+-..++..||..|+++|=
T Consensus 61 vl~~~~~t~edk~~Ald~le~LVE~IDN 88 (92)
T PF08609_consen 61 VLEDPEVTLEDKLIALDNLEELVENIDN 88 (92)
T ss_pred HHHCCCCCHHHHHHHHHHHHHHHHcccc
Confidence 4456788999999999999989998874
No 22
>COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown]
Probab=29.25 E-value=1.5e+02 Score=20.35 Aligned_cols=28 Identities=29% Similarity=0.283 Sum_probs=23.0
Q ss_pred CCCcChhHHHHHHHhcCCCceeEEeeeeC
Q psy2429 79 DDLVSVDALQESIQDIEDYVSLVFLKCVP 107 (108)
Q Consensus 79 Dd~~~~d~lee~i~~~ed~VqSvdI~~~~ 107 (108)
|..-+.|-|..+|+++=| |.+|+|....
T Consensus 52 ~s~R~~~lL~~QLeKl~D-v~~V~i~~~~ 79 (86)
T COG3978 52 DSDRSVDLLTSQLEKLYD-VAHVEITQSE 79 (86)
T ss_pred cCCCChHHHHHHHHHHcc-ceeEEEeehh
Confidence 556799999999999874 9999987643
No 23
>PF14790 THDPS_N: Tetrahydrodipicolinate N-succinyltransferase N-terminal; PDB: 2RIJ_A 3R5A_F 3R5B_A 3R5C_B 3R5D_D.
Probab=27.42 E-value=99 Score=23.59 Aligned_cols=27 Identities=37% Similarity=0.628 Sum_probs=13.9
Q ss_pred HHHHHHHhhhc-CCeeEeeeEeeeeeeeeeeEEE
Q psy2429 41 EMEKQVRAIQM-DGLLWGASKLAPLAYGINKLQI 73 (108)
Q Consensus 41 ~L~~~Ir~i~~-eGl~wg~~k~~PIaFGlkkLqi 73 (108)
+++..|.+++. .|+ ..|+||||-.+..
T Consensus 2 ~Fk~~v~~iq~~~~Y------k~PlaFGIaRvd~ 29 (167)
T PF14790_consen 2 EFKNFVEEIQSSSGY------KDPLAFGIARVDR 29 (167)
T ss_dssp HHHHHHHHHHTSTT----------SEEEEEEEEE
T ss_pred hHHHHHHHHHhcccC------CCcceeeeeeeee
Confidence 34555555543 454 3699999966543
No 24
>PRK08577 hypothetical protein; Provisional
Probab=26.99 E-value=2.2e+02 Score=19.76 Aligned_cols=81 Identities=12% Similarity=0.123 Sum_probs=47.4
Q ss_pred eeeEEEEEeeCCCccCHHHHHHHHHhhhcCCeeEeeeEeeeee-eeeeeEEEEEEEeCCCcChhHHHHHHHhcCCCceeE
Q psy2429 23 KSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLA-YGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101 (108)
Q Consensus 23 Ks~vvl~VkP~d~etDl~~L~~~Ir~i~~eGl~wg~~k~~PIa-FGlkkLqi~~vveDd~~~~d~lee~i~~~ed~VqSv 101 (108)
+..+.|.|.=.|..=-|.++-..+. ..|............ =|+-.+.+.+.+.+.....+++.+.|.+++ +|.++
T Consensus 54 k~~~~I~V~~~Dr~GvLa~I~~~l~---~~~inI~~i~~~~~~~~~~~~i~l~vev~~~~~~l~~l~~~L~~l~-~V~~V 129 (136)
T PRK08577 54 KKLVEIELVVEDRPGVLAKITGLLA---EHGVDILATECEELKRGELAECVIIVDLSKSDIDLEELEEELKKLE-EVKEV 129 (136)
T ss_pred ccEEEEEEEEcCCCCHHHHHHHHHH---HCCCCEEEEEEEEecCCCEEEEEEEEEeCCchhhHHHHHHHHHcCC-CEEEE
Confidence 4455555555554444555555543 344554443333322 233334455555554456788999999997 79999
Q ss_pred EeeeeC
Q psy2429 102 FLKCVP 107 (108)
Q Consensus 102 dI~~~~ 107 (108)
.+..++
T Consensus 130 ~~~~~~ 135 (136)
T PRK08577 130 EIRQIE 135 (136)
T ss_pred EEEEcc
Confidence 988764
No 25
>PRK10665 nitrogen regulatory protein P-II 2; Provisional
Probab=26.86 E-value=2.2e+02 Score=19.71 Aligned_cols=52 Identities=19% Similarity=0.360 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhhcCCeeEeeeE---------------eeeeeeeeeeEEEEEEEeCCCcChhHHHHHHHh
Q psy2429 39 MKEMEKQVRAIQMDGLLWGASK---------------LAPLAYGINKLQISCVVEDDLVSVDALQESIQD 93 (108)
Q Consensus 39 l~~L~~~Ir~i~~eGl~wg~~k---------------~~PIaFGlkkLqi~~vveDd~~~~d~lee~i~~ 93 (108)
++++.+.+..+--.|+++...+ ...+- -+-+.++.++++|+ ..|.+.+.|..
T Consensus 13 l~~v~~AL~~~G~~g~Tv~~V~G~G~q~g~~~~~rg~~~~~~-~~~k~~ieivv~de--~ve~vv~~I~~ 79 (112)
T PRK10665 13 LEDVREALSSIGIQGLTVTEVKGFGRQKGHAELYRGAEYSVN-FLPKVKIDVAIADD--QLDEVIDIISK 79 (112)
T ss_pred HHHHHHHHHHCCCCcEEEEeeEecCCCCCCcceeccceeeec-ccceEEEEEEEChH--hHHHHHHHHHH
Confidence 5566666666655677654321 00111 24688999999885 56667666654
No 26
>PF08478 POTRA_1: POTRA domain, FtsQ-type; InterPro: IPR013685 FtsQ/DivIB bacterial division proteins (IPR005548 from INTERPRO) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts []. ; PDB: 2ALJ_A 2VH1_B 3J00_Z 2VH2_B.
Probab=26.13 E-value=31 Score=20.74 Aligned_cols=26 Identities=15% Similarity=0.447 Sum_probs=20.2
Q ss_pred cChhHHHHHHHhcCCCceeEEee-eeCC
Q psy2429 82 VSVDALQESIQDIEDYVSLVFLK-CVPN 108 (108)
Q Consensus 82 ~~~d~lee~i~~~ed~VqSvdI~-~~~~ 108 (108)
..++.+++.|..+. +|.++.|. .|||
T Consensus 34 ~~~~~~~~~l~~~p-~V~~v~V~r~~P~ 60 (69)
T PF08478_consen 34 LDLKKIEQRLEKLP-WVKSVSVSRRFPN 60 (69)
T ss_dssp SHHHHHHHCCCCTT-TEEEEEEEEETTT
T ss_pred ECHHHHHHHHHcCC-CEEEEEEEEeCCC
Confidence 46778888888886 89999987 5654
No 27
>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=25.10 E-value=82 Score=18.42 Aligned_cols=22 Identities=9% Similarity=0.129 Sum_probs=18.2
Q ss_pred cChhHHHHHHHhcCCCceeEEee
Q psy2429 82 VSVDALQESIQDIEDYVSLVFLK 104 (108)
Q Consensus 82 ~~~d~lee~i~~~ed~VqSvdI~ 104 (108)
.....++..|.+++ +|+++.+.
T Consensus 11 ~C~~~v~~~l~~~~-GV~~v~vd 32 (62)
T PF00403_consen 11 GCAKKVEKALSKLP-GVKSVKVD 32 (62)
T ss_dssp HHHHHHHHHHHTST-TEEEEEEE
T ss_pred HHHHHHHHHHhcCC-CCcEEEEE
Confidence 44678999999996 89999875
No 28
>PF04991 LicD: LicD family; InterPro: IPR007074 The LicD family of proteins show high sequence similarity and are involved in phosphorylcholine metabolism. There is evidence to show that LicD2 mutants have a reduced ability to take up choline, have decreased ability to adhere to host cells and are less virulent []. Fukutin, which is a member of the LicD family, is a human protein which may be involved in the modification of glycan moieties of alpha-dystroglycan; defects in Fukutin are associated with congential muscular dystrophy [].
Probab=24.66 E-value=26 Score=25.32 Aligned_cols=10 Identities=50% Similarity=1.195 Sum_probs=8.3
Q ss_pred EeeCCCccCH
Q psy2429 30 VKPWGDDTDM 39 (108)
Q Consensus 30 VkP~d~etDl 39 (108)
.-|||+++|+
T Consensus 24 fIPWDDDiDi 33 (205)
T PF04991_consen 24 FIPWDDDIDI 33 (205)
T ss_pred CCCCCCcccE
Confidence 4699999994
No 29
>COG1685 Archaeal shikimate kinase [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=24.21 E-value=1.5e+02 Score=24.37 Aligned_cols=35 Identities=17% Similarity=0.262 Sum_probs=24.1
Q ss_pred ccCHHHHHHHHHhh-----hcCCeeEeeeEeeeeeeeeee
Q psy2429 36 DTDMKEMEKQVRAI-----QMDGLLWGASKLAPLAYGINK 70 (108)
Q Consensus 36 etDl~~L~~~Ir~i-----~~eGl~wg~~k~~PIaFGlkk 70 (108)
+.|-.-++.++..+ .+.|+...-+...|+|+|||.
T Consensus 48 ~~d~~li~~~~~~v~e~~g~~~~~~v~v~SeiP~~~GLkS 87 (278)
T COG1685 48 EGDTRLIERCVERVREKYGIPLGVEVEVESEIPVGSGLKS 87 (278)
T ss_pred CCChHHHHHHHHHHHHHcCCCcceEEEEecCCCcccCcch
Confidence 55666566655544 345677777777899999984
No 30
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=23.52 E-value=86 Score=19.20 Aligned_cols=34 Identities=15% Similarity=0.199 Sum_probs=19.1
Q ss_pred eeEEEEEEEeCCCc-----ChhHHHHHHHhcCCCceeEEe
Q psy2429 69 NKLQISCVVEDDLV-----SVDALQESIQDIEDYVSLVFL 103 (108)
Q Consensus 69 kkLqi~~vveDd~~-----~~d~lee~i~~~ed~VqSvdI 103 (108)
..+.+.+.+..... -.+++++++..++ +|.+|+|
T Consensus 34 ~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~-gv~~V~V 72 (72)
T PF01883_consen 34 GKVSVSLELPTPACPAAEPLREEIREALKALP-GVKSVKV 72 (72)
T ss_dssp CEEEEEE--SSTTHTTHHHHHHHHHHHHHTST-T-SEEEE
T ss_pred CEEEEEEEECCCCchHHHHHHHHHHHHHHhCC-CCceEeC
Confidence 44555555543222 2456677788897 6999876
No 31
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=22.93 E-value=93 Score=19.48 Aligned_cols=22 Identities=14% Similarity=0.320 Sum_probs=18.4
Q ss_pred cChhHHHHHHHhcCCCceeEEee
Q psy2429 82 VSVDALQESIQDIEDYVSLVFLK 104 (108)
Q Consensus 82 ~~~d~lee~i~~~ed~VqSvdI~ 104 (108)
+-...++.+|.+++ +|+++++.
T Consensus 15 ~C~~~V~~al~~v~-gv~~v~v~ 36 (71)
T COG2608 15 HCVKTVEKALEEVD-GVASVDVD 36 (71)
T ss_pred HHHHHHHHHHhcCC-CeeEEEEE
Confidence 34778999999996 89999874
No 32
>PRK10858 nitrogen regulatory protein P-II 1; Provisional
Probab=21.23 E-value=2.9e+02 Score=19.10 Aligned_cols=53 Identities=23% Similarity=0.359 Sum_probs=30.3
Q ss_pred HHHHHHHHHhhhcCCeeEeeeE---eee--------eee---eeeeEEEEEEEeCCCcChhHHHHHHHh
Q psy2429 39 MKEMEKQVRAIQMDGLLWGASK---LAP--------LAY---GINKLQISCVVEDDLVSVDALQESIQD 93 (108)
Q Consensus 39 l~~L~~~Ir~i~~eGl~wg~~k---~~P--------IaF---GlkkLqi~~vveDd~~~~d~lee~i~~ 93 (108)
++++.+.+.+.--.|+++...+ ... .-| =+-+.++.++++|+ ..|.+.+.|.+
T Consensus 13 l~~v~~aL~~~G~~g~Tv~~V~G~G~q~g~~~~~~~~~~~~~~~pK~~ieivv~D~--~v~~vv~~I~~ 79 (112)
T PRK10858 13 LDDVREALAEVGITGMTVTEVKGFGRQKGHTELYRGAEYMVDFLPKVKIEIVVPDD--IVDTCVDTIIR 79 (112)
T ss_pred HHHHHHHHHHCCCCeEEEEEeEecCCCCCCceeeecceeeccceeeEEEEEEEChH--hHHHHHHHHHH
Confidence 5666677776666677664211 000 000 13478899999885 55666666654
No 33
>COG4668 MtlA Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]
Probab=20.77 E-value=67 Score=23.82 Aligned_cols=21 Identities=33% Similarity=0.634 Sum_probs=15.8
Q ss_pred hcCCeeEeeeEeeeeeeeeee
Q psy2429 50 QMDGLLWGASKLAPLAYGINK 70 (108)
Q Consensus 50 ~~eGl~wg~~k~~PIaFGlkk 70 (108)
.|+|+.||+....-+.+||-+
T Consensus 80 ~p~GV~wg~g~~a~~viGIAa 100 (142)
T COG4668 80 FPEGVDWGDGQIAYLVIGIAA 100 (142)
T ss_pred CCCccccCCCceEEEEEEEec
Confidence 689999997666666777643
Done!