Query 027980
Match_columns 216
No_of_seqs 20 out of 22
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 04:26:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01641 phageSPP1_gp7 phage 85.5 1.3 2.9E-05 32.5 3.8 54 34-87 1-55 (108)
2 cd01170 THZ_kinase 4-methyl-5- 81.0 3.3 7.2E-05 34.9 4.9 54 32-89 189-242 (242)
3 PF04233 Phage_Mu_F: Phage Mu 80.9 3.8 8.2E-05 29.4 4.6 54 33-86 2-57 (112)
4 PRK12412 pyridoxal kinase; Rev 74.9 7 0.00015 32.8 5.1 54 31-85 212-265 (268)
5 PRK10974 glycerol-3-phosphate 69.8 12 0.00026 32.7 5.6 37 32-68 399-435 (438)
6 PRK09355 hydroxyethylthiazole 67.9 15 0.00034 31.2 5.7 55 32-89 193-247 (263)
7 TIGR00097 HMP-P_kinase phospho 65.2 14 0.0003 30.6 4.8 45 32-77 207-251 (254)
8 PRK06427 bifunctional hydroxy- 60.8 20 0.00043 29.5 5.0 38 32-69 215-252 (266)
9 PRK05808 3-hydroxybutyryl-CoA 59.6 8.6 0.00019 32.2 2.7 44 1-45 14-57 (282)
10 cd01171 YXKO-related B.subtili 59.4 31 0.00067 28.2 5.8 38 32-69 202-239 (254)
11 TIGR03851 chitin_NgcE carbohyd 56.7 19 0.00041 31.5 4.4 34 31-64 410-443 (450)
12 PF08704 GCD14: tRNA methyltra 56.5 5.2 0.00011 35.0 0.9 34 1-34 49-86 (247)
13 PRK12616 pyridoxal kinase; Rev 54.2 31 0.00066 29.2 5.1 46 31-77 215-260 (270)
14 TIGR00694 thiM hydroxyethylthi 54.0 41 0.00088 28.5 5.8 53 33-89 189-241 (249)
15 PF05433 Rick_17kDa_Anti: Glyc 53.3 0.95 2.1E-05 30.6 -3.2 37 102-138 1-41 (42)
16 PF05225 HTH_psq: helix-turn-h 50.9 26 0.00056 23.3 3.4 24 31-54 2-25 (45)
17 TIGR03126 one_C_fae formaldehy 50.7 46 0.001 28.6 5.7 42 29-70 80-139 (160)
18 KOG1503 Phosphoribosylpyrophos 49.3 11 0.00025 35.2 2.0 21 133-153 244-264 (354)
19 PF08543 Phos_pyr_kin: Phospho 47.8 51 0.0011 27.5 5.4 45 32-77 201-245 (246)
20 PLN02545 3-hydroxybutyryl-CoA 47.1 22 0.00047 30.1 3.2 39 7-46 21-59 (295)
21 PHA03190 UL14 tegument protein 46.8 67 0.0015 28.5 6.2 44 18-61 8-59 (196)
22 PTZ00247 adenosine kinase; Pro 43.9 49 0.0011 28.4 4.8 46 32-85 298-343 (345)
23 TIGR01748 rhaA L-rhamnose isom 41.7 45 0.00098 32.3 4.7 49 32-85 339-387 (414)
24 PRK01076 L-rhamnose isomerase; 39.7 50 0.0011 32.1 4.7 49 32-85 343-391 (419)
25 PF00288 GHMP_kinases_N: GHMP 39.6 66 0.0014 21.6 4.1 46 32-92 22-67 (67)
26 TIGR02279 PaaC-3OHAcCoADH 3-hy 38.9 31 0.00067 32.7 3.1 45 1-46 16-60 (503)
27 TIGR01231 lacC tagatose-6-phos 38.8 67 0.0014 26.8 4.8 33 32-64 253-285 (309)
28 COG5269 ZUO1 Ribosome-associat 38.4 59 0.0013 31.0 4.8 44 28-71 269-312 (379)
29 PF05298 Bombinin: Bombinin; 37.8 11 0.00024 31.7 0.0 71 6-80 57-131 (141)
30 PF08714 Fae: Formaldehyde-act 37.5 61 0.0013 27.8 4.4 41 30-70 79-137 (159)
31 PF13356 DUF4102: Domain of un 36.7 40 0.00087 24.2 2.8 47 6-54 26-86 (89)
32 PRK12413 phosphomethylpyrimidi 35.6 1.2E+02 0.0025 24.8 5.6 36 32-67 209-244 (253)
33 PF06754 PhnG: Phosphonate met 34.9 1.4E+02 0.003 24.5 5.9 53 28-85 84-139 (146)
34 PRK09260 3-hydroxybutyryl-CoA 34.6 42 0.00091 28.4 3.0 44 1-45 12-55 (288)
35 PRK01558 V-type ATP synthase s 34.5 1.1E+02 0.0024 25.5 5.4 15 20-34 11-25 (198)
36 COG2519 GCD14 tRNA(1-methylade 33.5 16 0.00035 33.0 0.4 41 1-41 103-147 (256)
37 cd00225 API3 Ascaris pepsin in 32.8 1.5E+02 0.0032 25.8 6.0 56 3-63 9-64 (159)
38 TIGR03850 bind_CPR_0540 carboh 32.8 83 0.0018 27.1 4.6 32 31-62 404-435 (437)
39 PRK09474 malE maltose ABC tran 32.0 68 0.0015 27.3 3.9 28 33-60 368-395 (396)
40 PRK11730 fadB multifunctional 31.9 52 0.0011 32.4 3.5 49 1-50 324-372 (715)
41 PLN03132 NADH dehydrogenase (u 31.8 52 0.0011 31.9 3.5 74 81-159 291-375 (461)
42 PF12637 TSCPD: TSCPD domain; 31.6 1.5E+02 0.0033 22.2 5.3 40 16-56 26-65 (95)
43 PF03701 UPF0181: Uncharacteri 31.6 94 0.002 22.6 3.9 26 31-57 14-39 (51)
44 COG2937 PlsB Glycerol-3-phosph 31.3 1.1E+02 0.0023 32.2 5.7 54 30-83 221-275 (810)
45 PF08136 Ribosomal_S22: 30S ri 31.2 21 0.00046 25.3 0.6 10 66-75 3-12 (45)
46 TIGR03293 PhnG_redo phosphonat 30.6 1.8E+02 0.0039 23.8 6.0 57 27-85 82-138 (144)
47 PHA02357 hypothetical protein 30.5 86 0.0019 24.6 3.8 31 15-46 23-53 (81)
48 PF14014 DUF4230: Protein of u 29.9 84 0.0018 24.1 3.8 34 49-82 109-149 (157)
49 cd01169 HMPP_kinase 4-amino-5- 29.7 1E+02 0.0022 24.6 4.3 33 32-64 208-240 (242)
50 PRK13307 bifunctional formalde 29.3 1.2E+02 0.0027 28.5 5.4 42 29-70 81-140 (391)
51 TIGR02707 butyr_kinase butyrat 29.0 66 0.0014 29.3 3.5 96 1-97 181-306 (351)
52 PF02737 3HCDH_N: 3-hydroxyacy 29.0 61 0.0013 26.2 3.0 48 2-50 11-58 (180)
53 PRK07819 3-hydroxybutyryl-CoA 28.4 65 0.0014 27.8 3.2 48 1-49 16-63 (286)
54 COG2064 TadC Flp pilus assembl 28.3 2.6E+02 0.0056 23.1 6.6 74 20-93 157-258 (320)
55 PRK07530 3-hydroxybutyryl-CoA 28.2 61 0.0013 27.4 3.0 44 2-46 16-59 (292)
56 PRK07105 pyridoxamine kinase; 28.0 1.6E+02 0.0034 24.8 5.4 38 32-69 222-259 (284)
57 PRK07066 3-hydroxybutyryl-CoA 27.9 43 0.00092 30.2 2.1 49 1-50 18-66 (321)
58 PRK06129 3-hydroxyacyl-CoA deh 27.7 54 0.0012 28.1 2.6 40 6-46 18-57 (308)
59 PF09429 Wbp11: WW domain bind 27.5 1.2E+02 0.0026 22.5 4.0 49 45-94 3-58 (78)
60 PRK08268 3-hydroxy-acyl-CoA de 27.5 62 0.0013 30.6 3.2 45 1-46 18-62 (507)
61 PF06134 RhaA: L-rhamnose isom 27.5 71 0.0015 31.1 3.6 55 23-85 335-390 (417)
62 PRK06035 3-hydroxyacyl-CoA deh 27.3 69 0.0015 27.1 3.1 46 1-46 14-61 (291)
63 PTZ00493 phosphomethylpyrimidi 26.7 1.8E+02 0.0039 26.7 5.8 58 32-95 252-309 (321)
64 PRK05114 hypothetical protein; 26.5 1.3E+02 0.0027 22.5 4.0 25 31-56 14-38 (59)
65 PF08989 DUF1896: Domain of un 26.4 1.2E+02 0.0026 25.7 4.3 30 29-58 35-64 (144)
66 PF15459 RRP14: 60S ribosome b 26.4 73 0.0016 23.2 2.7 20 53-72 39-58 (64)
67 PRK08176 pdxK pyridoxal-pyrido 26.2 1.8E+02 0.0038 24.8 5.4 38 32-69 233-270 (281)
68 PRK08573 phosphomethylpyrimidi 26.0 1.3E+02 0.0029 27.7 4.9 65 31-96 210-282 (448)
69 PRK10294 6-phosphofructokinase 25.9 1.5E+02 0.0032 24.8 4.8 32 32-63 256-287 (309)
70 TIGR03207 cyc_hxne_CoA_dh cycl 25.9 4.3E+02 0.0094 22.8 7.8 47 42-89 301-347 (372)
71 cd01941 YeiC_kinase_like YeiC- 25.8 1.5E+02 0.0032 23.9 4.7 31 32-62 255-285 (288)
72 PRK09813 fructoselysine 6-kina 25.8 1.6E+02 0.0035 23.9 4.9 32 32-63 223-254 (260)
73 PTZ00347 phosphomethylpyrimidi 25.0 1E+02 0.0022 28.7 4.0 36 32-67 445-480 (504)
74 COG3140 Uncharacterized protei 24.8 1.2E+02 0.0026 22.7 3.6 25 30-55 13-37 (60)
75 TIGR02529 EutJ ethanolamine ut 24.7 2.1E+02 0.0046 24.1 5.6 42 1-50 115-157 (239)
76 PRK10057 rpsV 30S ribosomal su 24.5 32 0.00069 24.3 0.5 10 67-76 4-13 (44)
77 COG0271 BolA Stress-induced mo 24.0 76 0.0016 24.6 2.5 19 28-46 56-74 (90)
78 PF09552 RE_BstXI: BstXI restr 23.5 2.4E+02 0.0053 26.4 6.1 62 12-74 150-222 (287)
79 PRK08269 3-hydroxybutyryl-CoA 23.3 1.3E+02 0.0028 26.6 4.2 48 1-49 1-55 (314)
80 COG3134 Predicted outer membra 23.2 27 0.00059 30.5 -0.0 38 102-139 72-109 (179)
81 cd08788 CARD_NOD2_2_CARD15 Cas 23.1 3.5E+02 0.0076 21.2 6.0 54 21-75 4-68 (81)
82 PRK14473 F0F1 ATP synthase sub 23.0 3.4E+02 0.0073 21.5 6.1 14 29-42 39-52 (164)
83 COG4690 PepD Dipeptidase [Amin 22.9 1.7E+02 0.0036 29.0 5.1 52 28-81 401-452 (464)
84 cd01173 pyridoxal_pyridoxamine 22.4 2.3E+02 0.005 23.1 5.2 35 32-66 218-252 (254)
85 PF00742 Homoserine_dh: Homose 22.2 88 0.0019 26.1 2.8 22 38-59 29-51 (179)
86 PRK09850 pseudouridine kinase; 22.1 1.8E+02 0.0038 24.5 4.6 32 32-63 256-287 (313)
87 PF14613 DUF4449: Protein of u 22.1 1.3E+02 0.0029 25.4 3.8 28 28-55 29-56 (164)
88 CHL00201 syh histidine-tRNA sy 22.0 3.2E+02 0.007 25.1 6.6 42 80-129 250-294 (430)
89 PF07916 TraG_N: TraG-like pro 22.0 3.2E+02 0.0069 24.5 6.4 83 27-113 279-373 (466)
90 TIGR00687 pyridox_kin pyridoxa 21.7 2.5E+02 0.0054 23.6 5.4 39 32-70 223-261 (286)
91 PRK02292 V-type ATP synthase s 21.4 2.7E+02 0.006 22.3 5.4 22 51-72 51-72 (188)
92 TIGR00196 yjeF_cterm yjeF C-te 21.2 3.5E+02 0.0075 22.8 6.2 37 33-69 215-251 (272)
93 PRK13310 N-acetyl-D-glucosamin 21.1 1.3E+02 0.0028 25.3 3.6 50 46-96 206-257 (303)
94 PRK09557 fructokinase; Reviewe 21.0 1.4E+02 0.0031 25.1 3.8 50 46-96 205-256 (301)
95 cd01166 KdgK 2-keto-3-deoxyglu 20.8 2.3E+02 0.0049 22.9 4.8 31 32-62 257-287 (294)
96 PF15604 Toxin_43: Putative to 20.7 2.5E+02 0.0053 23.8 5.1 54 26-84 46-105 (152)
97 COG3404 Methenyl tetrahydrofol 20.7 1.8E+02 0.0039 26.2 4.5 36 28-66 102-137 (208)
98 cd01168 adenosine_kinase Adeno 20.6 2.1E+02 0.0047 23.7 4.7 32 32-63 273-304 (312)
99 PRK11280 hypothetical protein; 20.5 8.3 0.00018 33.0 -3.6 39 101-139 65-107 (170)
100 cd01684 Tet_like_IV EF-G_domai 20.5 3.5E+02 0.0076 20.4 5.5 30 17-46 43-72 (115)
101 PF14748 P5CR_dimer: Pyrroline 20.3 3.8E+02 0.0082 20.2 5.7 34 34-67 24-57 (107)
102 TIGR03828 pfkB 1-phosphofructo 20.3 2.2E+02 0.0048 23.2 4.7 31 32-62 251-281 (304)
No 1
>TIGR01641 phageSPP1_gp7 phage putative head morphogenesis protein, SPP1 gp7 family. This model describes a region of about 110 amino acids found exclusively in phage-related proteins, internally or toward the C-terminus. One member, gp7 of phage SPP1, appears involved in head morphogenesis.
Probab=85.55 E-value=1.3 Score=32.47 Aligned_cols=54 Identities=24% Similarity=0.353 Sum_probs=38.7
Q ss_pred HHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhc-chhhhhh
Q 027980 34 IEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAA-GWDFFEA 87 (216)
Q Consensus 34 ~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiiss-gWDfFEa 87 (216)
++.+|.+++.+|.++++-||.-++........|.+-|+-=+.-+.+. -|+.++.
T Consensus 1 ~~~~l~~gi~~G~~~~~iak~i~~~~~~~~~~A~~iarTe~~~a~~~~~~~~~~~ 55 (108)
T TIGR01641 1 VEDILADGVQRGLGPNELAKRLRKELGVQKHYAQRLARTETARIYNQTKLERYKK 55 (108)
T ss_pred ChHHHHHHHHcCCCHHHHHHHHHHHHCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999999999998887666555555555545544443 3565554
No 2
>cd01170 THZ_kinase 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine and 1-deoxy-D-xylulose-5-phosphate.
Probab=80.96 E-value=3.3 Score=34.91 Aligned_cols=54 Identities=24% Similarity=0.261 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhh
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIY 89 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalY 89 (216)
..+-.++.-.+.+|+++.+|++.|+.--.+|++.|.++.. ||= |---|+++.||
T Consensus 189 dtLa~aiAa~LA~g~~~~~A~~~A~~~~~~a~~~a~~~~~---~~~-~~~~~l~d~l~ 242 (242)
T cd01170 189 CLLGAVIAAFLAVGDDPLEAAVSAVLVYGIAGELAAERAK---GPG-SFRVALLDELY 242 (242)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhcCC---CCC-hHHHHHHHhhC
Confidence 3566788889999999999999999999999988865544 332 44568888887
No 3
>PF04233 Phage_Mu_F: Phage Mu protein F like protein; InterPro: IPR006528 This domain is found exclusively in phage-related proteins, internally or toward the C terminus. Some of these proteins have been identified as being involved in phage head morphogenesis [, ].
Probab=80.89 E-value=3.8 Score=29.45 Aligned_cols=54 Identities=26% Similarity=0.407 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHHH-HHHHHHHHhhhhhcchh-hcchhhhh
Q 027980 33 AIEKAVVDALSQGLSSNDAAKQAQKEGAK-AAKLAKRQAKRIIGPII-AAGWDFFE 86 (216)
Q Consensus 33 A~e~AL~da~~qGls~~eaAk~Aqk~g~k-AAKlA~rQAkRI~GPii-ssgWDfFE 86 (216)
.|+++|.+++.+|.++++-+|.-++.... ....|.+-|+-=+.-+. ++-|+.++
T Consensus 2 ~i~~~v~~~i~~G~~~~~~~~~l~~~~~~~~~~ra~~iarTe~~~a~~~a~~~~~~ 57 (112)
T PF04233_consen 2 RIRQAVTQGIERGKSPQEIAKRLRDRGGVTSRYRAERIARTETARAYNAARWQQYQ 57 (112)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47889999999999999999999988644 33344444443333332 23444433
No 4
>PRK12412 pyridoxal kinase; Reviewed
Probab=74.88 E-value=7 Score=32.84 Aligned_cols=54 Identities=19% Similarity=0.293 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF 85 (216)
=.++-.|+..++.+|+++.||.+.|+.-..++-+.+.+.-+ =.||+-..+|--|
T Consensus 212 GD~f~aa~aa~l~~g~~l~eA~~~A~~~~~~~i~~~~~~g~-g~~~~~~~~~~~~ 265 (268)
T PRK12412 212 GCTYSAAITAELAKGKPVKEAVKTAKEFITAAIRYSFKINE-YVGPTHHGAYRKF 265 (268)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHhccCC-CCCCcCccchhhc
Confidence 46788899999999999999999999988887776654333 3788877788655
No 5
>PRK10974 glycerol-3-phosphate transporter periplasmic binding protein; Provisional
Probab=69.77 E-value=12 Score=32.71 Aligned_cols=37 Identities=8% Similarity=0.171 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKR 68 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~r 68 (216)
.++..+|.+++....+++||.++|+++.....+...|
T Consensus 399 ~~~~~~~~~~~~g~~t~~eal~~a~~~~~~~l~~~~~ 435 (438)
T PRK10974 399 TIVDEELESVWTGKKTPQQALDSAVERGNQLLRRFEK 435 (438)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 4788888889988899999999999998888775443
No 6
>PRK09355 hydroxyethylthiazole kinase; Validated
Probab=67.90 E-value=15 Score=31.22 Aligned_cols=55 Identities=22% Similarity=0.222 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhh
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIY 89 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalY 89 (216)
-.+-.++.-.+.+|.++.+|+..|+.--..|+.+|.++... || -|---+|+..||
T Consensus 193 c~L~~~iaa~lA~g~~~~~A~~~A~~~~~~a~~~a~~~~~~--g~-gsf~~~l~d~l~ 247 (263)
T PRK09355 193 CLLSAVVAAFAAVEKDYLEAAAAACAVYGIAGELAAERSEK--GP-GSFQPAFLDALY 247 (263)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcCCC--CC-hHHHHHHHHHHh
Confidence 35667888889999999999999999999999998876432 77 355567888777
No 7
>TIGR00097 HMP-P_kinase phosphomethylpyrimidine kinase. This model represents phosphomethylpyrimidine kinase, the ThiD protein of thiamine biosynthesis. The protein is commonly observed within operons containing other thiamine biosynthesis genes. Numerous examples are fusion proteins with other thiamine-biosynthetic domains. Saccaromyces has three recent paralogs, two of which are isofunctional and score above the trusted cutoff. The third shows a longer branch length in a phylogenetic tree and scores below the trusted cutoff, as do putative second copies in a number of species.
Probab=65.18 E-value=14 Score=30.55 Aligned_cols=45 Identities=24% Similarity=0.370 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcch
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPI 77 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPi 77 (216)
.+.-.|+..++.+|+++.||.+.|+.-..++-+.+.+.-+. .||+
T Consensus 207 D~f~aalaa~la~g~~l~eA~~~A~~~~~~~i~~~~~~~~~-~~~~ 251 (254)
T TIGR00097 207 CTLSAAIAANLAKGLSLKEAVKEAKEFVTGAIRYGLNIGHG-HGPL 251 (254)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHhhcCCCC-CCCC
Confidence 67888999999999999999999999888887766543222 4554
No 8
>PRK06427 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed
Probab=60.83 E-value=20 Score=29.48 Aligned_cols=38 Identities=24% Similarity=0.258 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQ 69 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQ 69 (216)
.+.-.++..++.+|+++.||++.|+....++.+.+.+.
T Consensus 215 D~f~a~l~~~l~~g~~l~~A~~~A~~~~~~~i~~~~~~ 252 (266)
T PRK06427 215 CTLSAAIAAELAKGASLLDAVQTAKDYVTRAIRHALEI 252 (266)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 68888999999999999999999999988888877543
No 9
>PRK05808 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=59.56 E-value=8.6 Score=32.24 Aligned_cols=44 Identities=23% Similarity=0.367 Sum_probs=35.3
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcC
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQG 45 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qG 45 (216)
||++...+..+.|..+.+|++...-+++++.+. ++.|.+++.+|
T Consensus 14 mG~~ia~~la~~g~~V~~~d~~~~~~~~~~~~i-~~~l~~~~~~g 57 (282)
T PRK05808 14 MGNGIAQVCAVAGYDVVMVDISDAAVDRGLATI-TKSLDRLVKKG 57 (282)
T ss_pred HHHHHHHHHHHCCCceEEEeCCHHHHHHHHHHH-HHHHHHHHHcC
Confidence 344455566788999999999999999888774 78888888888
No 10
>cd01171 YXKO-related B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily.
Probab=59.35 E-value=31 Score=28.23 Aligned_cols=38 Identities=29% Similarity=0.264 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQ 69 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQ 69 (216)
..+-.++.-.+.||+++.||++.|.....+|+..+.+.
T Consensus 202 D~lag~iaa~la~g~~~~eA~~~A~~~~~~a~~~~~~~ 239 (254)
T cd01171 202 DVLAGIIAALLAQGLSPLEAAALAVYLHGLAGDLAAKK 239 (254)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677788888899999999999999999998877654
No 11
>TIGR03851 chitin_NgcE carbohydrate ABC transporter, N-acetylglucosamine/diacetylchitobiose-binding protein. Members of this protein family are the substrate-binding protein, a lipid-anchored protein of Gram-positive bacteria in all examples found so far, that include NgcE of the chitin-degrader, Streptomyces olivaceoviridis, and close homologs from other species likely to share the same function. NgcE binds both N-acetylglucosamine and the chitin dimer, N,N'-diacetylchitobiose.
Probab=56.68 E-value=19 Score=31.51 Aligned_cols=34 Identities=18% Similarity=0.187 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAK 64 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAK 64 (216)
..++..+|.+++...++++||.+++|+...+..+
T Consensus 410 ~~~~~~~~~~~~~g~~t~~~al~~~~~~~~~~~~ 443 (450)
T TIGR03851 410 NKDQLVLTNEFMAGRITADEFCERMQKAADKIAK 443 (450)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHhc
Confidence 3578889999999999999999999987666543
No 12
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=56.45 E-value=5.2 Score=34.96 Aligned_cols=34 Identities=26% Similarity=0.443 Sum_probs=26.1
Q ss_pred CCCcceeeeeec----ceeEEEeechhHHHHHHHHHHH
Q 027980 1 MGSGTVACGVKE----GVKLYFYNIRAAHVERARNVAI 34 (216)
Q Consensus 1 mGsGtlACavKE----GVKLY~ynIRs~hvE~~R~~A~ 34 (216)
.|||+|+++.-. .=+||.|-+|.-|.+.||+..-
T Consensus 49 tGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~ 86 (247)
T PF08704_consen 49 TGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFE 86 (247)
T ss_dssp -TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHH
Confidence 388988875443 3399999999999999987744
No 13
>PRK12616 pyridoxal kinase; Reviewed
Probab=54.15 E-value=31 Score=29.15 Aligned_cols=46 Identities=22% Similarity=0.224 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcch
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPI 77 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPi 77 (216)
=.++-.+|..++.+|++..+|.+.|+.-..++-|.+.+.-+. .||+
T Consensus 215 GD~fsaalaa~l~~g~~l~~Av~~A~~~~~~~i~~s~~~g~~-~~~~ 260 (270)
T PRK12616 215 GCTFSAAVTAELAKGSEVKEAIYAAKEFITAAIKESFPLNQY-VGPT 260 (270)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHhhcCCC-CCCh
Confidence 467888999999999999999999999988888777553332 5665
No 14
>TIGR00694 thiM hydroxyethylthiazole kinase. This model represents the hydoxyethylthiazole kinase, ThiM, of a number of bacteria, and C-terminal domains of bifunctional thiamine biosynthesis proteins of Saccharomyces cerevisiae and Schizosaccharomyces pombe, in which the N-terminal domain corresponds to the bacterial thiamine-phosphate pyrophosphorylase (EC 2.5.1.3), ThiE.
Probab=53.97 E-value=41 Score=28.49 Aligned_cols=53 Identities=23% Similarity=0.160 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhh
Q 027980 33 AIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIY 89 (216)
Q Consensus 33 A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalY 89 (216)
.+-.++.-.+.+|.++.+|+..|+..-..|.+.|.++.. ||= +---||++.||
T Consensus 189 ~LssaIaa~LA~g~~~~~A~~~A~~~~~~a~~~a~~~~~---g~g-~~~~~l~d~l~ 241 (249)
T TIGR00694 189 LLGSVVAAFCAVEEDPLDAAISACLLYKIAGELAAERSK---GPG-SFQIELLDALS 241 (249)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcCC---CCc-cHHHHHHHHHH
Confidence 566788888999999999999999999999998876643 442 33457777776
No 15
>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []. The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane
Probab=53.30 E-value=0.95 Score=30.56 Aligned_cols=37 Identities=30% Similarity=0.510 Sum_probs=24.6
Q ss_pred ccccccccccccccccc----ccchhhhcccccccccccee
Q 027980 102 TGTLFGAYAGGFLGEER----LGRFGYLVGSHLGSWAGGRI 138 (216)
Q Consensus 102 tGTL~Gty~GGf~GE~R----lGr~GYLvGShlGSWvGGRI 138 (216)
.||+.|+.+|++.|-+- --.++=++|.-+|.++|.-|
T Consensus 1 ~G~~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G~~i 41 (42)
T PF05433_consen 1 IGALIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIGNQI 41 (42)
T ss_pred CchHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHhhc
Confidence 47888888888887664 22355666666666666544
No 16
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=50.89 E-value=26 Score=23.30 Aligned_cols=24 Identities=25% Similarity=0.279 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHH
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQ 54 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~ 54 (216)
...|++||.+-...+||...||+.
T Consensus 2 ee~l~~Ai~~v~~g~~S~r~AA~~ 25 (45)
T PF05225_consen 2 EEDLQKAIEAVKNGKMSIRKAAKK 25 (45)
T ss_dssp HHHHHHHHHHHHTTSS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHH
Confidence 456889996655444999998875
No 17
>TIGR03126 one_C_fae formaldehyde-activating enzyme. This family consists of formaldehyde-activating enzyme, or the corresponding domain of longer, bifunctional proteins. It links formaldehyde to the C1 carrier tetrahydromethanopterin (H4MPT), an analog of tetrahydrofolate, and is common among species with H4MPT. The ribulose monophosphate (RuMP) pathway, which removes the toxic metabolite formaldehyde by assimilation, runs in the opposite direction in some species to produce ribulose 5-phosphate for nucleotide biosynthesis, leaving formaldehyde as an additional metabolite. In these species, formaldehyde activating enzyme may occur as a fusion protein with D-arabino 3-hexulose 6-phosphate formaldehyde lyase from the RuMP pathway.
Probab=50.68 E-value=46 Score=28.62 Aligned_cols=42 Identities=33% Similarity=0.471 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHhcCCChHHHH------------------HHHHHHHHHHHHHHHHHh
Q 027980 29 ARNVAIEKAVVDALSQGLSSNDAA------------------KQAQKEGAKAAKLAKRQA 70 (216)
Q Consensus 29 ~R~~A~e~AL~da~~qGls~~eaA------------------k~Aqk~g~kAAKlA~rQA 70 (216)
.=|.|+-+|..|++.+|.=|+|.| +.-++---.|+|+|.+.|
T Consensus 80 paQ~avA~AVaD~V~eG~iP~~~addl~Iiv~Vfi~p~a~D~~kiy~~NY~ATKlAI~rA 139 (160)
T TIGR03126 80 PAQAAVAKAVADSVEEGIIPKDEADDLVIIVSVFIHPEAKDDRKIYKYNYEATKLAIKRA 139 (160)
T ss_pred HHHHHHHHHHHHHHHcCCCChhhhCcEEEEEEEEeccccccHHHHHHHHHHHHHHHHHHH
Confidence 348999999999999999988865 334455567888887766
No 18
>KOG1503 consensus Phosphoribosylpyrophosphate synthetase-associated protein [Amino acid transport and metabolism; Nucleotide transport and metabolism]
Probab=49.29 E-value=11 Score=35.24 Aligned_cols=21 Identities=33% Similarity=0.691 Sum_probs=18.7
Q ss_pred cccceeeeeeeeehhhHHHHH
Q 027980 133 WAGGRIGLMIYDVVNGVHFLL 153 (216)
Q Consensus 133 WvGGRIGLM~YDV~ngv~~ll 153 (216)
=|||||+.|+=|+|.-++-+.
T Consensus 244 dvggriaimvddiiddvqsfv 264 (354)
T KOG1503|consen 244 DVGGRIAIMVDDIIDDVQSFV 264 (354)
T ss_pred ccCceEEEEehhhHHhHHHHH
Confidence 379999999999999998765
No 19
>PF08543 Phos_pyr_kin: Phosphomethylpyrimidine kinase; InterPro: IPR013749 This enzyme 2.7.4.7 from EC is part of the Thiamine pyrophosphate (TPP) synthesis pathway, TPP is an essential cofactor for many enzymes []. ; PDB: 2DDW_B 2DDO_B 2DDM_A 3IBQ_A 3H74_A 3HYO_A 1UB0_A 1VI9_D 1TD2_B 2PHP_D ....
Probab=47.81 E-value=51 Score=27.51 Aligned_cols=45 Identities=22% Similarity=0.224 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcch
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPI 77 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPi 77 (216)
...-.+|...+.+|+++.+|.++|+.--..+-+.+.+. -+-.|||
T Consensus 201 d~fss~laa~l~~g~~l~~Av~~A~~~v~~~i~~t~~~-g~~~~~~ 245 (246)
T PF08543_consen 201 DLFSSALAAFLAKGYSLEEAVEKAKNFVRRAIKNTIQL-GMGAGPV 245 (246)
T ss_dssp HHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHHHHHC-TSSS-B-
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcC-CCCCCCC
Confidence 46788999999999999999999999888888855543 3455664
No 20
>PLN02545 3-hydroxybutyryl-CoA dehydrogenase
Probab=47.15 E-value=22 Score=30.05 Aligned_cols=39 Identities=10% Similarity=0.277 Sum_probs=30.1
Q ss_pred eeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 7 ACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 7 ACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
.+..+-|..+++|+....-+++++++. ++++.+.+..|.
T Consensus 21 ~~l~~~G~~V~~~d~~~~~~~~~~~~~-~~~~~~~~~~g~ 59 (295)
T PLN02545 21 QLAAAAGMDVWLLDSDPAALSRGLDSI-SSSLARLVKKGK 59 (295)
T ss_pred HHHHhcCCeEEEEeCCHHHHHHHHHHH-HHHHHHHHHcCC
Confidence 344567899999999998888887665 677777777664
No 21
>PHA03190 UL14 tegument protein; Provisional
Probab=46.85 E-value=67 Score=28.53 Aligned_cols=44 Identities=20% Similarity=0.274 Sum_probs=35.1
Q ss_pred EeechhHHHHHHHHHHHHHHHHHHHhcCCChHH--------HHHHHHHHHHH
Q 027980 18 FYNIRAAHVERARNVAIEKAVVDALSQGLSSND--------AAKQAQKEGAK 61 (216)
Q Consensus 18 ~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~e--------aAk~Aqk~g~k 61 (216)
-.|-|+-.|+--|..++...-.|.+++|.++.+ +||+|....+.
T Consensus 8 r~~ara~~~~y~r~~iyKaRtLdL~r~GV~~~dP~Fv~aFTsAKeA~~~~~~ 59 (196)
T PHA03190 8 RIQARAEIMEYIKGQAYKAAVIEMMSAGVPPMHPAFRHAFAKAREHEAAAEI 59 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHHH
Confidence 357789999999999999999999999999876 45655544433
No 22
>PTZ00247 adenosine kinase; Provisional
Probab=43.85 E-value=49 Score=28.36 Aligned_cols=46 Identities=9% Similarity=0.045 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF 85 (216)
.+.-.++.-++.+|+++.||++.|...++.+.. -.|+.+...|+|.
T Consensus 298 DaF~agfl~~l~~g~~~~~al~~a~~aAa~~v~--------~~Ga~~~~~~~~~ 343 (345)
T PTZ00247 298 DAFVGGFLAQYANGKDIDRCVEAGHYSAQVIIQ--------HNGCTYPEKPPFL 343 (345)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHh--------ccCCCCCCCCCCC
Confidence 578889999999999999999988776554432 2588888888764
No 23
>TIGR01748 rhaA L-rhamnose isomerase. This enzyme interconverts L-rhamnose and L-rhamnulose. In some species, including E. coli, this is the first step in rhamnose catabolism. Sequential steps are catalyzed by rhamnulose kinase (rhaB), then rhamnulose-1-phosphate aldolase (rhaD) to yield glycerone phosphate and (S)-lactaldehyde. Characterization of this family is based on members in E. coli and Salmonella.
Probab=41.70 E-value=45 Score=32.34 Aligned_cols=49 Identities=29% Similarity=0.541 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF 85 (216)
|.+++||..|+ |-|.++-|+||.+++--.++|...--+-+ | +.+.||-|
T Consensus 339 rn~qkAll~AL---L~p~~~L~~~q~~gD~~~rla~~ee~k~~-p-~gavw~~~ 387 (414)
T TIGR01748 339 RNMKKALLRAL---LEPTAELKKLEAEGDYTARLALLEEQKSL-P-FGAVWEMY 387 (414)
T ss_pred HHHHHHHHHHH---cCCHHHHHHHHHcCCHHHHHHHHHHHhcC-C-hHHHHHHH
Confidence 45788888888 67999999999999999999976543332 2 56678866
No 24
>PRK01076 L-rhamnose isomerase; Provisional
Probab=39.66 E-value=50 Score=32.06 Aligned_cols=49 Identities=31% Similarity=0.553 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF 85 (216)
|++++||..|+ |-|.++-|+||.+++--.++|...--+-+ | +.+.||-|
T Consensus 343 rn~qkAll~AL---L~p~~~L~~~q~~gD~~~rla~~ee~k~~-p-~g~vwd~~ 391 (419)
T PRK01076 343 RNMKKALLRAL---LEPTDQLRKLELEGDYTARLALLEEQKSL-P-WGAVWDMY 391 (419)
T ss_pred HHHHHHHHHHH---cCCHHHHHHHHHcCCHHHHHHHHHHHhcC-C-hHHHHHHH
Confidence 46788888888 67999999999999999999976433322 2 56778865
No 25
>PF00288 GHMP_kinases_N: GHMP kinases N terminal domain; InterPro: IPR006204 The galacto- (2.7.1.6 from EC), homoserine (2.7.1.39 from EC), mevalonate (2.7.1.36 from EC) and phosphomevalonate (2.7.4.2 from EC) kinases contain, in their N-terminal section, a conserved Gly/Ser-rich region which is probably involved in the binding of ATP [, ]. This group of kinases has been called 'GHMP' (from the first letter of their substrates).; GO: 0005524 ATP binding, 0016301 kinase activity, 0016310 phosphorylation; PDB: 3F0N_B 1PIE_A 2AJ4_A 1K47_E 3GON_A 2R3V_C 3HUL_A 1KVK_A 2R42_A 3D4J_A ....
Probab=39.61 E-value=66 Score=21.62 Aligned_cols=46 Identities=39% Similarity=0.450 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhhhcC
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIYYGG 92 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalYyGG 92 (216)
-|+-.||.+.....+++.|-++.|+ ++.+.+ .. .+|.|- =+.+|||
T Consensus 22 ~a~~~a~~~~~~~~~~~~~l~~~a~------------~~e~~~-g~-~~g~d~-~~~~~GG 67 (67)
T PF00288_consen 22 VALAAALNKLFGLPLSKEELAKLAQ------------EAERYI-GK-PSGIDD-AASAYGG 67 (67)
T ss_dssp HHHHHHHHHHTTTSSBHHHHHHHHH------------HHHHHC-SS-SHSHHH-HHHHHCS
T ss_pred HHHHHHHHHHccccccHHHHHHHHH------------HHHHHc-CC-CChhhH-HHHHhCc
Confidence 4566778888888777766644433 445556 33 389998 6778887
No 26
>TIGR02279 PaaC-3OHAcCoADH 3-hydroxyacyl-CoA dehydrogenase PaaC. This 3-hydroxyacyl-CoA dehydrogenase is involved in the degradation of phenylacetic acid, presumably in steps following the opening of the phenyl ring. The sequences included in this model are all found in aparrent operons with other related genes such as paaA, paaB, paaD, paaE, paaF and paaN. Some genomes contain these other genes without an apparent paaC in the same operon - possibly in these cases a different dehydrogenase involved in fatty acid degradation may fill in the needed activity. This enzyme has domains which are members of the pfam02737 and pfam00725 families.
Probab=38.89 E-value=31 Score=32.74 Aligned_cols=45 Identities=29% Similarity=0.493 Sum_probs=36.6
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
||+|--.|..+.|.++.+||+...-+++++++ +++.|...+..|.
T Consensus 16 MG~gIA~~la~aG~~V~l~d~~~e~l~~~~~~-i~~~l~~~~~~G~ 60 (503)
T TIGR02279 16 MGAGIAQVAASAGHQVLLYDIRAEALARAIAG-IEARLNSLVTKGK 60 (503)
T ss_pred HHHHHHHHHHhCCCeEEEEeCCHHHHHHHHHH-HHHHHHHHHhcCC
Confidence 56666667788999999999999999988776 4677888888884
No 27
>TIGR01231 lacC tagatose-6-phosphate kinase. This enzyme is part of the tagatose-6-phosphate pathway of lactose degradation.
Probab=38.79 E-value=67 Score=26.84 Aligned_cols=33 Identities=24% Similarity=0.193 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAK 64 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAK 64 (216)
.+.-.++.-++.+|++++|+.+.|+..++.++.
T Consensus 253 DaF~agfl~~l~~g~~~~~a~~~a~a~aa~~~~ 285 (309)
T TIGR01231 253 DSTVAGITSALLNHESDHDLLKKANTLGMLNAQ 285 (309)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc
Confidence 688899999999999999999999998888773
No 28
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=38.40 E-value=59 Score=31.04 Aligned_cols=44 Identities=23% Similarity=0.199 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhh
Q 027980 28 RARNVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAK 71 (216)
Q Consensus 28 ~~R~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAk 71 (216)
+.|...+..||+-|-..-.+.+|++|.|||.-+||.|-|.+.|.
T Consensus 269 k~kae~ea~a~asa~a~kkkaKE~~kka~k~~Kk~ikna~kd~~ 312 (379)
T COG5269 269 KNKAEIEAEALASATAVKKKAKEVMKKALKMEKKAIKNAAKDAD 312 (379)
T ss_pred HhHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 44555566788888888889999999999999999998887654
No 29
>PF05298 Bombinin: Bombinin; InterPro: IPR007962 This family consists of Bombinin and Maximin proteins from Bombina maxima (Giant fire-bellied toad). Two groups of antimicrobial peptides have been isolated from skin secretions of B. maxima. Peptides in the first group, named maximins 1, 2, 3, 4 and 5, are structurally related to bombinin-like peptides (BLPs). Unlike BLPs, sequence variations in maximins occurred all through the molecules. In addition to the potent antimicrobial activity, cytotoxicity against tumour cells and spermicidal action of maximins, maximin 3 possessed a significant anti-Simian-Human immunodeficiency virus (HIV) activity. Maximins 1 and 3 have been found to be toxic to mice. Peptides in the second group, termed maximins H1, H2, H3 and H4, are homologous with bombinin H peptides [].; GO: 0042742 defense response to bacterium, 0005576 extracellular region; PDB: 2AP7_A.
Probab=37.75 E-value=11 Score=31.70 Aligned_cols=71 Identities=23% Similarity=0.319 Sum_probs=4.0
Q ss_pred eeeeeecceeEEEeechhH--HHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHH--HHHHHHHHHHHHhhhhhcchhhc
Q 027980 6 VACGVKEGVKLYFYNIRAA--HVERARNVAIEKAVVDALSQGLSSNDAAKQAQK--EGAKAAKLAKRQAKRIIGPIIAA 80 (216)
Q Consensus 6 lACavKEGVKLY~ynIRs~--hvE~~R~~A~e~AL~da~~qGls~~eaAk~Aqk--~g~kAAKlA~rQAkRI~GPiiss 80 (216)
+-|+.|+=..-|++--|++ |--+-|-.|+-+-|... -.|+||...--+ --..-|.+-.++-|||+||+++-
T Consensus 57 ~kg~~k~la~~~~~gkRtAedhEvmKRleavmrdldsl----d~peEasEretrgfnqeeianlftkkekrilgpvl~~ 131 (141)
T PF05298_consen 57 LKGAAKELASTYANGKRTAEDHEVMKRLEAVMRDLDSL----DHPEEASERETRGFNQEEIANLFTKKEKRILGPVLGL 131 (141)
T ss_dssp --------------------------------------------------------------------------HHHHH
T ss_pred HHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhhhcc----cChHHHHHHHhcCCChhhhhhhhhhhhhhhhhhHHHH
Confidence 5577777777788888887 43444444443333211 235555433211 01234567777889999999874
No 30
>PF08714 Fae: Formaldehyde-activating enzyme (Fae); InterPro: IPR014826 This family consists of formaldehyde-activating enzyme, or the corresponding domain of longer, bifunctional proteins. It links formaldehyde to the C1 carrier tetrahydromethanopterin (H4MPT), an analog of tetrahydrofolate, and is common among species with H4MPT []. The ribulose monophosphate (RuMP) pathway, which removes the toxic metabolite formaldehyde by assimilation, runs in the opposite direction in some species to produce ribulose 5-phosphate for nucleotide biosynthesis, leaving formaldehyde as an additional metabolite. In these species, formaldehyde activating enzyme may occur as a fusion protein with D-arabino 3-hexulose 6-phosphate formaldehyde lyase from the RuMP pathway.; GO: 0016840 carbon-nitrogen lyase activity, 0016051 carbohydrate biosynthetic process; PDB: 1Y60_A 1Y5Y_D.
Probab=37.52 E-value=61 Score=27.83 Aligned_cols=41 Identities=37% Similarity=0.490 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHhcCCChHHHH------------------HHHHHHHHHHHHHHHHHh
Q 027980 30 RNVAIEKAVVDALSQGLSSNDAA------------------KQAQKEGAKAAKLAKRQA 70 (216)
Q Consensus 30 R~~A~e~AL~da~~qGls~~eaA------------------k~Aqk~g~kAAKlA~rQA 70 (216)
=|.|+-+|.+|++.+|.=|+|-+ +.-++---.|+|+|.+.|
T Consensus 79 aQaavA~AVaD~V~eG~iP~~~a~dl~Iiv~Vfi~p~a~D~~kiy~~NY~AtklAI~rA 137 (159)
T PF08714_consen 79 AQAAVAKAVADAVEEGIIPKDEADDLVIIVSVFIHPDALDDKKIYRYNYEATKLAIKRA 137 (159)
T ss_dssp HHHHHHHHHHHHHHTTSS-TTTGGGEEEEEEEE--TT---HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCChhhcCcEEEEEEEEeCccccCHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999999887754 344555667888887765
No 31
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=36.67 E-value=40 Score=24.16 Aligned_cols=47 Identities=19% Similarity=0.317 Sum_probs=29.7
Q ss_pred eeeeeecceeEEEeech--------------hHHHHHHHHHHHHHHHHHHHhcCCChHHHHHH
Q 027980 6 VACGVKEGVKLYFYNIR--------------AAHVERARNVAIEKAVVDALSQGLSSNDAAKQ 54 (216)
Q Consensus 6 lACavKEGVKLY~ynIR--------------s~hvE~~R~~A~e~AL~da~~qGls~~eaAk~ 54 (216)
..+.-+-|+|-|+|..| ..-+..||..|. .+.+.+.+|..|.+.-++
T Consensus 26 ~l~v~~~G~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~--~~~~~~~~G~dP~~~~~~ 86 (89)
T PF13356_consen 26 YLRVTPSGSKTFYFRYRINGKRRRITLGRYPELSLAEAREKAR--ELRALVRQGIDPREEKKA 86 (89)
T ss_dssp EEEE-TTS-EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHH--HHHHHHCTT--GGGS-GG
T ss_pred EEEEEeCCCeEEEEEEEecceEEEeccCCCccCCHHHHHHHHH--HHHHHHHcCCCHHHHHHH
Confidence 33445567887776665 456889999985 578889999999876443
No 32
>PRK12413 phosphomethylpyrimidine kinase; Provisional
Probab=35.62 E-value=1.2e+02 Score=24.83 Aligned_cols=36 Identities=17% Similarity=0.208 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAK 67 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~ 67 (216)
.++-.++..++.+|+++.||.+.|+.--.++-+.+.
T Consensus 209 Daf~a~~~~~l~~g~~l~ea~~~A~~~~~~~l~~~~ 244 (253)
T PRK12413 209 CTFASSIASQLVKGKSPLEAVKNSKDFVYQAIQQSD 244 (253)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 478889999999999999999999877666665543
No 33
>PF06754 PhnG: Phosphonate metabolism protein PhnG; InterPro: IPR009609 This family consists of several bacterial phosphonate metabolism protein PhnG sequences. In Escherichia coli, the phn operon encodes proteins responsible for the uptake and breakdown of phosphonates. The exact function of PhnG is unknown, however it is thought likely that along with six other proteins PhnG makes up the the C-P (carbon-phosphorus) lyase [].; GO: 0015716 phosphonate transport, 0019634 phosphonate metabolic process
Probab=34.87 E-value=1.4e+02 Score=24.46 Aligned_cols=53 Identities=32% Similarity=0.304 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHH-HHHH--HHHHHHHHHHHHhhhhhcchhhcchhhh
Q 027980 28 RARNVAIEKAVVDALSQGLSSNDAAK-QAQK--EGAKAAKLAKRQAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 28 ~~R~~A~e~AL~da~~qGls~~eaAk-~Aqk--~g~kAAKlA~rQAkRI~GPiissgWDfF 85 (216)
+-+.+|.--|+.||+-|.-.+.+... +... +.+.+++.+.|+++ +-++-.|||
T Consensus 84 ~d~~~A~~~Av~DAllq~~~~~~~~~~~li~~l~~~~~~~~~~~~~~-----~aaTkVdFf 139 (146)
T PF06754_consen 84 RDKRHAELAAVIDALLQAPLPHAELWEALIAPLAAARAERRAERAAE-----AAATKVDFF 139 (146)
T ss_pred CCHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHHHHHH-----HhcCeeeeE
Confidence 44578888899999999655554433 2111 22334444444444 667778887
No 34
>PRK09260 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=34.56 E-value=42 Score=28.36 Aligned_cols=44 Identities=20% Similarity=0.347 Sum_probs=31.3
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcC
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQG 45 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qG 45 (216)
||++--.|..+.|-++.+|++....+++++++ ++..+...+..|
T Consensus 12 mG~~iA~~la~~G~~V~~~d~~~~~~~~~~~~-~~~~~~~~~~~g 55 (288)
T PRK09260 12 MGRGIAYVFAVSGFQTTLVDIKQEQLESAQQE-IASIFEQGVARG 55 (288)
T ss_pred HHHHHHHHHHhCCCcEEEEeCCHHHHHHHHHH-HHHHHHHHHHcC
Confidence 34444456677899999999999999998876 445555555544
No 35
>PRK01558 V-type ATP synthase subunit E; Provisional
Probab=34.54 E-value=1.1e+02 Score=25.49 Aligned_cols=15 Identities=27% Similarity=0.350 Sum_probs=10.3
Q ss_pred echhHHHHHHHHHHH
Q 027980 20 NIRAAHVERARNVAI 34 (216)
Q Consensus 20 nIRs~hvE~~R~~A~ 34 (216)
+|++-.|+.|+++|-
T Consensus 11 ki~~~~~eeA~~eA~ 25 (198)
T PRK01558 11 KIKKDGLEEAERLAN 25 (198)
T ss_pred HHHHHHHHHHHHHHH
Confidence 567777777777663
No 36
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=33.49 E-value=16 Score=33.04 Aligned_cols=41 Identities=27% Similarity=0.283 Sum_probs=31.4
Q ss_pred CCCcceeee----eecceeEEEeechhHHHHHHHHHHHHHHHHHH
Q 027980 1 MGSGTVACG----VKEGVKLYFYNIRAAHVERARNVAIEKAVVDA 41 (216)
Q Consensus 1 mGsGtlACa----vKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da 41 (216)
.|||.|+|. +..-=+++.|-||.-|.|.||+..-+-.|.|.
T Consensus 103 tGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~d~ 147 (256)
T COG2519 103 TGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDR 147 (256)
T ss_pred cCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccccc
Confidence 388888875 44545899999999999999987766555553
No 37
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=32.81 E-value=1.5e+02 Score=25.77 Aligned_cols=56 Identities=20% Similarity=0.262 Sum_probs=34.7
Q ss_pred CcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 027980 3 SGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAA 63 (216)
Q Consensus 3 sGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAA 63 (216)
.|+..|.|+ +-+||.+++|---+...-|+-+..=.+|. --.++..|++.++-.+--
T Consensus 9 ggs~gCvVt-~N~Lfang~~lReLt~~Eq~el~~y~~d~----~~yK~~~k~~l~er~~~~ 64 (159)
T cd00225 9 GGSAGCVVT-DNVLFANGFPLRELTPDEQQELAQYVEDV----ADYKEEVKQALKERQEGL 64 (159)
T ss_pred CCceeEEEE-CCEEEecCceeeeCCHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhh
Confidence 489999998 56899999986655554444433333332 235666666666544433
No 38
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=32.81 E-value=83 Score=27.15 Aligned_cols=32 Identities=9% Similarity=0.075 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQKEGAKA 62 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kA 62 (216)
...+..++++++....||+||++++++.-++.
T Consensus 404 ~~~~~~~~~~~~~g~~t~~ea~~~~~~~~~~~ 435 (437)
T TIGR03850 404 KDTLYGTVNSVVSGDKTVEEWQDSVEEASDKL 435 (437)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHh
Confidence 36688899999999999999999988876654
No 39
>PRK09474 malE maltose ABC transporter periplasmic protein; Reviewed
Probab=32.05 E-value=68 Score=27.28 Aligned_cols=28 Identities=25% Similarity=0.273 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 027980 33 AIEKAVVDALSQGLSSNDAAKQAQKEGA 60 (216)
Q Consensus 33 A~e~AL~da~~qGls~~eaAk~Aqk~g~ 60 (216)
++..++..++...++++||.+++|+...
T Consensus 368 ~~~~~~~~~~~g~~s~~~al~~~~~~~~ 395 (396)
T PRK09474 368 AMRTAIINATSGRQTVDAALDDAAKRIT 395 (396)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence 5667777777777999999999998754
No 40
>PRK11730 fadB multifunctional fatty acid oxidation complex subunit alpha; Reviewed
Probab=31.85 E-value=52 Score=32.45 Aligned_cols=49 Identities=16% Similarity=0.256 Sum_probs=39.3
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCCChHH
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGLSSND 50 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~e 50 (216)
||+|--.|..+-|..+.+|.+...-+++++++ +++.|...+..|.-..+
T Consensus 324 mG~gIA~~~a~~G~~V~l~d~~~~~l~~~~~~-~~~~l~~~~~~g~~~~~ 372 (715)
T PRK11730 324 MGGGIAYQSASKGVPVIMKDINQKALDLGMTE-AAKLLNKQVERGKIDGA 372 (715)
T ss_pred hHHHHHHHHHhCCCeEEEEeCCHHHHHHHHHH-HHHHHHHHHHcCCCChh
Confidence 56666667778899999999999999999876 67788888888865433
No 41
>PLN03132 NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional
Probab=31.75 E-value=52 Score=31.86 Aligned_cols=74 Identities=22% Similarity=0.251 Sum_probs=49.3
Q ss_pred chhhhhhhh-hcCccceeeeecccccccccccccccccccc--chhhh----ccccccccccceeeeeeee----ehhhH
Q 027980 81 GWDFFEAIY-YGGTITEGFIRGTGTLFGAYAGGFLGEERLG--RFGYL----VGSHLGSWAGGRIGLMIYD----VVNGV 149 (216)
Q Consensus 81 gWDfFEalY-yGGt~tEgflRGtGTL~Gty~GGf~GE~RlG--r~GYL----vGShlGSWvGGRIGLM~YD----V~ngv 149 (216)
|--+=|.|+ ++|.+..|.-+-..-+.|-..|+++.++.+- .+-|= +||-||| . |++|+| ++.-+
T Consensus 291 Gt~l~eli~~~~GG~~~g~~~~~~vi~GG~s~~~l~~~~~~~~~ld~~~l~~~Gs~lGs----G-gviV~de~~~~v~~~ 365 (461)
T PLN03132 291 SIPLKELIERHCGGVRGGWDNLLAIIPGGSSVPLLPKKICDDVLMDFDALKAVQSGLGT----A-AVIVMDKSTDVVDAI 365 (461)
T ss_pred CCCHHHHHHHHcCCCCCCccccceEEECCCCcccccHHHhCCCCCCHHHHHhcCCCcCc----c-eEEEECCCCCHHHHH
Confidence 445567777 7887777643334567788899999988773 33332 2555554 2 678886 56677
Q ss_pred HHHHHHhccc
Q 027980 150 HFLLQFVQSE 159 (216)
Q Consensus 150 ~~ll~~vq~e 159 (216)
.++++|.+.|
T Consensus 366 ~~~~~F~a~E 375 (461)
T PLN03132 366 ARLSYFYKHE 375 (461)
T ss_pred HHHHHHHhcc
Confidence 7778888766
No 42
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=31.64 E-value=1.5e+02 Score=22.19 Aligned_cols=40 Identities=18% Similarity=0.225 Sum_probs=31.1
Q ss_pred EEEeechhHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHH
Q 027980 16 LYFYNIRAAHVERARNVAIEKAVVDALSQGLSSNDAAKQAQ 56 (216)
Q Consensus 16 LY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~eaAk~Aq 56 (216)
+++.-=++-+. .+=-.|+.+.+.-+|..|+++++..+|-.
T Consensus 26 vf~~~~~~Gg~-~~~~~ai~rliS~~Lr~G~~~~~ii~~L~ 65 (95)
T PF12637_consen 26 VFINVGKAGGC-SGNLEAIARLISLALRSGVPPEEIIDQLR 65 (95)
T ss_pred EEEecCcCCCc-hHHHHHHHHHHHHHHHcCCCHHHHHHHhc
Confidence 56544455555 77788999999999999999999887643
No 43
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=31.59 E-value=94 Score=22.56 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHH
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQK 57 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aqk 57 (216)
|.|.|+ +++...||||..||.+...+
T Consensus 14 Q~AvE~-Iq~LMaqGmSsgEAI~~VA~ 39 (51)
T PF03701_consen 14 QQAVER-IQELMAQGMSSGEAIAIVAQ 39 (51)
T ss_pred HHHHHH-HHHHHHhcccHHHHHHHHHH
Confidence 566665 68899999999999876433
No 44
>COG2937 PlsB Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]
Probab=31.29 E-value=1.1e+02 Score=32.22 Aligned_cols=54 Identities=31% Similarity=0.474 Sum_probs=42.9
Q ss_pred HHHHHHHHHHH-HHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchh
Q 027980 30 RNVAIEKAVVD-ALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWD 83 (216)
Q Consensus 30 R~~A~e~AL~d-a~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWD 83 (216)
...||++|++| |-+.|-|.++|-|.|++...-.|...+--.=|..+=|+|=+||
T Consensus 221 as~~ir~aia~eak~~~is~EkA~k~a~~~a~eiaa~fS~~~vr~~dr~ls~~wn 275 (810)
T COG2937 221 ASAAIRKAIADEARSKGISVEKAQKMADELATEIAADFSYELIRVLDRILSRGWN 275 (810)
T ss_pred hhHHHHHHHhhHhhccCCCHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhh
Confidence 34567777765 5578999999999999999977777776677777888888888
No 45
>PF08136 Ribosomal_S22: 30S ribosomal protein subunit S22 family; InterPro: IPR012607 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family consists of the 30S ribosomal proteins subunit S22 polypeptides. This polypeptide is 47 amino acids in length and has a molecular weight of about 5 kDa. The S22 subunit is a component of the stationary-phase-specific ribosomal protein and is assembled in the ribosomal particles in the stationary phase. This subunit along with other stationary-phase-specific ribosomal proteins result in compositional changes of ribosomes during the stationary phase. The significance of this change is not clear as yet [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome
Probab=31.16 E-value=21 Score=25.34 Aligned_cols=10 Identities=40% Similarity=0.906 Sum_probs=8.3
Q ss_pred HHHHhhhhhc
Q 027980 66 AKRQAKRIIG 75 (216)
Q Consensus 66 A~rQAkRI~G 75 (216)
+-||||||+|
T Consensus 3 sNR~AR~iLG 12 (45)
T PF08136_consen 3 SNRKARHILG 12 (45)
T ss_pred cchHHHHHhC
Confidence 3589999998
No 46
>TIGR03293 PhnG_redo phosphonate C-P lyase system protein PhnG. PhnH is a component of the C-P lyase system (GenProp0232) for the catabolism of phosphonate compounds. The specific function of this component is unknown. This model is based on Pfam model pfam06754.2, and has been broadened to include sequences missed by that model which are clearly true positive hits based on genome context.
Probab=30.56 E-value=1.8e+02 Score=23.84 Aligned_cols=57 Identities=35% Similarity=0.323 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh
Q 027980 27 ERARNVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 27 E~~R~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF 85 (216)
-+.+.+|+--||.||+-|.-.+.+. ...+.....+++++.+++.|- -=+-++-.|||
T Consensus 82 Gr~~~~A~~~Ai~DAllq~~~~~~~-~~~~li~pl~~~~~~~~~~r~-~~~aaTkVdFf 138 (144)
T TIGR03293 82 GRDKRHAELLAVLDALLQAPLLHDE-LIADLIAPLAQRLAERRARRQ-AEAAATRVDFF 138 (144)
T ss_pred cCCHHHHHHHHHHHHHhcCCcchhH-HHHHHHHHHHHHHHHHHHHHH-HHHhcceeeee
Confidence 3456889999999999987665332 333333333444333332221 11345667776
No 47
>PHA02357 hypothetical protein
Probab=30.48 E-value=86 Score=24.60 Aligned_cols=31 Identities=29% Similarity=0.494 Sum_probs=24.8
Q ss_pred eEEEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 15 KLYFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 15 KLY~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
--|+|--|-..|+.+|.+|+| |+-+.+..|+
T Consensus 23 G~yvyvnkDtivds~k~k~~e-ait~sv~~~l 53 (81)
T PHA02357 23 GAYVYVNKDTIVDSAKEKATE-AITESVGGGL 53 (81)
T ss_pred ceEEEEechHHHHHHHHHHHH-HHHHhhcccC
Confidence 346666689999999999986 6778888877
No 48
>PF14014 DUF4230: Protein of unknown function (DUF4230)
Probab=29.85 E-value=84 Score=24.05 Aligned_cols=34 Identities=29% Similarity=0.505 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHH------HHHHHHhhhhhcchhhc-ch
Q 027980 49 NDAAKQAQKEGAKAA------KLAKRQAKRIIGPIIAA-GW 82 (216)
Q Consensus 49 ~eaAk~Aqk~g~kAA------KlA~rQAkRI~GPiiss-gW 82 (216)
.++-++|++...+.| ..|..+|++.|-+++.+ ||
T Consensus 109 ~~~~~~a~~~~~~~a~~~~i~~~A~~~a~~~l~~ll~~~g~ 149 (157)
T PF14014_consen 109 NEAQKEAKKKIEQEANESGILEQAKENAEKALEQLLKSLGF 149 (157)
T ss_pred HHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhccc
No 49
>cd01169 HMPP_kinase 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of the hydroxyl group of HMP to form 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate (HMP-P) and then the phophorylation of HMP-P to form 4-amino-5-hydroxymethyl-2-methyl-pyrimidine pyrophosphate (HMP-PP), which is the substrate for the thiamine synthase coupling reaction.
Probab=29.69 E-value=1e+02 Score=24.64 Aligned_cols=33 Identities=24% Similarity=0.425 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAK 64 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAK 64 (216)
.+.-.+|..++.+|+++.||.+.|+.--.++-+
T Consensus 208 D~f~a~l~a~l~~g~~~~~A~~~A~~~~~~~i~ 240 (242)
T cd01169 208 CTLSSAIAANLAKGLSLEEAVREAKEYVTQAIR 240 (242)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Confidence 688889999999999999999999887666544
No 50
>PRK13307 bifunctional formaldehyde-activating enzyme/3-hexulose-6-phosphate synthase; Provisional
Probab=29.35 E-value=1.2e+02 Score=28.46 Aligned_cols=42 Identities=33% Similarity=0.431 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhcCCChHHHH------------------HHHHHHHHHHHHHHHHHh
Q 027980 29 ARNVAIEKAVVDALSQGLSSNDAA------------------KQAQKEGAKAAKLAKRQA 70 (216)
Q Consensus 29 ~R~~A~e~AL~da~~qGls~~eaA------------------k~Aqk~g~kAAKlA~rQA 70 (216)
.=|.|+-+|.+|++.+|.=|+|.| +.-++---.|+|+|-+.|
T Consensus 81 ~~q~~~a~av~d~v~~g~~p~~~~~~~~i~~~v~~~~~~~d~~~~~~~ny~at~~ai~~a 140 (391)
T PRK13307 81 PAQAAVAKAVADAVEEGIIPKDKAEDLVIVASVFIHPTAKDYNKIYQYNYGATKLAIKRA 140 (391)
T ss_pred HHHHHHHHHHHHHHHcCCCChhhcCcEEEEEEEEcCchhccHHHHHHHHHHHHHHHHHHH
Confidence 348999999999999999987765 334444556677766544
No 51
>TIGR02707 butyr_kinase butyrate kinase. This model represents an enzyme family in which members are designated either butryate kinase or branched-chain carboxylic acid kinase. The EC designation 2.7.2.7 describes an enzyme with relatively broad specificity; gene products whose context suggests a role in metabolism of aliphatic amino acids are likely to act as branched-chain carboxylic acid kinase. The gene typically found adjacent, ptb (phosphate butyryltransferase), likewise encodes an enzyme that may have a broad specificity that includes a role in aliphatic amino acid cabolism.
Probab=29.04 E-value=66 Score=29.31 Aligned_cols=96 Identities=19% Similarity=0.219 Sum_probs=51.5
Q ss_pred CCCcceeeeeecceeEEEeec----------hhHHH------HHHHH-----HHHHHHHHH-----HHhcCCChHHHHHH
Q 027980 1 MGSGTVACGVKEGVKLYFYNI----------RAAHV------ERARN-----VAIEKAVVD-----ALSQGLSSNDAAKQ 54 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynI----------Rs~hv------E~~R~-----~A~e~AL~d-----a~~qGls~~eaAk~ 54 (216)
+|+|.=.|+++.|--+-..|- |+.|+ ...+. ..+.+.|+. .++.-.+..|.. +
T Consensus 181 LGtGig~~ai~~Gk~vdgs~G~agEg~~~~tr~G~id~~~~~~~~~~~~~s~~el~~~l~~~sGl~~~~gs~d~reI~-~ 259 (351)
T TIGR02707 181 MGGGISVAAHRKGRVIDVNNALDGEGPFSPERSGTLPLGDLVDLCYSGKYTKEEMKKKIVGNGGLVAYLGTNDAREVE-K 259 (351)
T ss_pred eCCCceeeeEECCEEEEcCCCCCCcCCcccCccCCCCchhHHHHHhcCCCCHHHHHHHHHhccCcccccCCCCHHHHH-H
Confidence 588999999999976544442 55443 11111 011111111 011112444443 3
Q ss_pred HHHHHHHHHHHHHHHhhhhhcchhhcchhhh----hhhhhcCcccee
Q 027980 55 AQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF----EAIYYGGTITEG 97 (216)
Q Consensus 55 Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF----EalYyGGt~tEg 97 (216)
+.+.+++.|+++..+.=+-++=-|++-.-.+ |++.|||.|.|.
T Consensus 260 ~a~~GD~~A~~a~d~~~~~la~~Ia~l~~~l~g~pD~IV~gGGI~e~ 306 (351)
T TIGR02707 260 RIEAGDEKAKLILDAMAYQIAKEIGKMAVVLKGKVDAIVLTGGLAYS 306 (351)
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEcchhhcC
Confidence 4455677777776655555554455444444 899999988764
No 52
>PF02737 3HCDH_N: 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; InterPro: IPR006176 3-hydroxyacyl-CoA dehydrogenase (1.1.1.35 from EC) (HCDH) [] is an enzyme involved in fatty acid metabolism, it catalyzes the reduction of 3-hydroxyacyl-CoA to 3-oxoacyl-CoA. Most eukaryotic cells have 2 fatty-acid beta-oxidation systems, one located in mitochondria and the other in peroxisomes. In peroxisomes 3-hydroxyacyl-CoA dehydrogenase forms, with enoyl-CoA hydratase (ECH) and 3,2-trans-enoyl-CoA isomerase (ECI) a multifunctional enzyme where the N-terminal domain bears the hydratase/isomerase activities and the C-terminal domain the dehydrogenase activity. There are two mitochondrial enzymes: one which is monofunctional and the other which is, like its peroxisomal counterpart, multifunctional. In Escherichia coli (gene fadB) and Pseudomonas fragi (gene faoA) HCDH is part of a multifunctional enzyme which also contains an ECH/ECI domain as well as a 3-hydroxybutyryl-CoA epimerase domain []. There are two major regions of similarity in the sequences of proteins of the HCDH family, the first one located in the N-terminal, corresponds to the NAD-binding site, the second one is located in the centre of the sequence. This represents the C-terminal domain which is also found in lambda crystallin. Some proteins include two copies of this domain.; GO: 0003857 3-hydroxyacyl-CoA dehydrogenase activity, 0016491 oxidoreductase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 3K6J_A 1ZCJ_A 2X58_A 1ZEJ_A 3HDH_B 2WTB_A 1WDL_B 2D3T_B 1WDK_A 1WDM_B ....
Probab=28.99 E-value=61 Score=26.19 Aligned_cols=48 Identities=27% Similarity=0.418 Sum_probs=33.9
Q ss_pred CCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCCChHH
Q 027980 2 GSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGLSSND 50 (216)
Q Consensus 2 GsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~e 50 (216)
|.|--+|...-|.+.-+|++...-+++++.+ +++.|...+..|.-.++
T Consensus 11 G~~iA~~~a~~G~~V~l~d~~~~~l~~~~~~-i~~~l~~~~~~~~~~~~ 58 (180)
T PF02737_consen 11 GRGIAALFARAGYEVTLYDRSPEALERARKR-IERLLDRLVRKGRLSQE 58 (180)
T ss_dssp HHHHHHHHHHTTSEEEEE-SSHHHHHHHHHH-HHHHHHHHHHTTTTTHH
T ss_pred HHHHHHHHHhCCCcEEEEECChHHHHhhhhH-HHHHHhhhhhhccchhh
Confidence 4444456667799999999999989998654 56677777777765533
No 53
>PRK07819 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=28.43 E-value=65 Score=27.83 Aligned_cols=48 Identities=27% Similarity=0.454 Sum_probs=37.0
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCCChH
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGLSSN 49 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~ 49 (216)
||+|--.+..+-|.++.+|++...-+++++++ +++.|..+++.|.-..
T Consensus 16 mG~~iA~~~a~~G~~V~l~d~~~~~~~~~~~~-i~~~~~~~~~~g~~~~ 63 (286)
T PRK07819 16 MGAGIAEVCARAGVDVLVFETTEELATAGRNR-IEKSLERAVSRGKLTE 63 (286)
T ss_pred HHHHHHHHHHhCCCEEEEEECCHHHHHHHHHH-HHHHHHHHHhcccCCh
Confidence 45555556678899999999999989988876 4568888888886533
No 54
>COG2064 TadC Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=28.34 E-value=2.6e+02 Score=23.14 Aligned_cols=74 Identities=28% Similarity=0.241 Sum_probs=47.3
Q ss_pred echhHHHHHHHHHHHHHHHHHH-------HhcCCChHHHHHHHHHHH----HHHHHHHHHHhhhhhcchh----------
Q 027980 20 NIRAAHVERARNVAIEKAVVDA-------LSQGLSSNDAAKQAQKEG----AKAAKLAKRQAKRIIGPII---------- 78 (216)
Q Consensus 20 nIRs~hvE~~R~~A~e~AL~da-------~~qGls~~eaAk~Aqk~g----~kAAKlA~rQAkRI~GPii---------- 78 (216)
+|...+..+-|++-+++.+.++ ...|++..+|.+.-.++- .++-+++..-++-=.|..+
T Consensus 157 ~i~~~~~~~~r~~~i~~~~p~~l~~~~~~~~~G~~l~~al~~va~~~~~~~~l~~~~~~~~~~~~~g~~~~~al~~~~~~ 236 (320)
T COG2064 157 FILFSLALKKRLKEIARELPDFLRLMAVCLEAGLSLADALKRVADELYGQRILAEELARTTAELSLGLSIEEALIRLAVR 236 (320)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCCHHHHHHHHHhcccCChHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3555666677777777777665 457999999999877775 5555555444444444433
Q ss_pred -------hcchhhhhhhhhcCc
Q 027980 79 -------AAGWDFFEAIYYGGT 93 (216)
Q Consensus 79 -------ssgWDfFEalYyGGt 93 (216)
..-++..+++=+||.
T Consensus 237 ~~~~~~~~~~~~l~~~~~~g~~ 258 (320)
T COG2064 237 LGSDEVKRVVSLLTQALESGGS 258 (320)
T ss_pred hCCHHHHHHHHHHHHHHHhcCC
Confidence 444555666666665
No 55
>PRK07530 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=28.24 E-value=61 Score=27.35 Aligned_cols=44 Identities=14% Similarity=0.280 Sum_probs=29.7
Q ss_pred CCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 2 GSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 2 GsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
|++--.+..+.|.++.+|+++..++++++++. ++.|...+.+|.
T Consensus 16 G~~iA~~la~~G~~V~l~d~~~~~~~~~~~~i-~~~~~~~~~~g~ 59 (292)
T PRK07530 16 GNGIAHVCALAGYDVLLNDVSADRLEAGLATI-NGNLARQVAKGK 59 (292)
T ss_pred HHHHHHHHHHCCCeEEEEeCCHHHHHHHHHHH-HHHHHHHHHcCC
Confidence 33344455677999999999999998876543 344555555554
No 56
>PRK07105 pyridoxamine kinase; Validated
Probab=28.02 E-value=1.6e+02 Score=24.78 Aligned_cols=38 Identities=18% Similarity=0.018 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQ 69 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQ 69 (216)
.+.-.++..++.+|++..||.+.|+.-..++-+.+...
T Consensus 222 D~f~aa~~~~l~~g~~l~~av~~A~~~~~~~i~~~~~~ 259 (284)
T PRK07105 222 DIFTSVITGSLLQGDSLPIALDRAVQFIEKGIRATLGL 259 (284)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 57888999999999999999999998888777766443
No 57
>PRK07066 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=27.93 E-value=43 Score=30.20 Aligned_cols=49 Identities=22% Similarity=0.284 Sum_probs=36.3
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCCChHH
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGLSSND 50 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~e 50 (216)
||+|--+|...-|..+.+|++...-+++++++ ++++|......|+++.+
T Consensus 18 MG~giA~~~a~aG~~V~l~D~~~~~~~~~~~~-i~~~~~~~~~~~~~~~~ 66 (321)
T PRK07066 18 IGSGWVARALAHGLDVVAWDPAPGAEAALRAN-VANAWPALERQGLAPGA 66 (321)
T ss_pred HHHHHHHHHHhCCCeEEEEeCCHHHHHHHHHH-HHHHHHHHHHcCCChhh
Confidence 45555566678899999999998888877654 44778877778876543
No 58
>PRK06129 3-hydroxyacyl-CoA dehydrogenase; Validated
Probab=27.72 E-value=54 Score=28.15 Aligned_cols=40 Identities=13% Similarity=0.116 Sum_probs=30.1
Q ss_pred eeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 6 VACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 6 lACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
-.+..+.|.++.+|++...-+++++.+. +..|...+..|.
T Consensus 18 A~~la~~G~~V~v~d~~~~~~~~~~~~~-~~~l~~l~~~g~ 57 (308)
T PRK06129 18 AIVFARAGHEVRLWDADPAAAAAAPAYI-AGRLEDLAAFDL 57 (308)
T ss_pred HHHHHHCCCeeEEEeCCHHHHHHHHHHH-HHHHHHHHHcCC
Confidence 3345677999999999998888888764 566666666664
No 59
>PF09429 Wbp11: WW domain binding protein 11; InterPro: IPR019007 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others. This entry represents WW domain-binding protein 11, which may play a role in the regulation of pre-mRNA processing. ; GO: 0006396 RNA processing
Probab=27.52 E-value=1.2e+02 Score=22.47 Aligned_cols=49 Identities=20% Similarity=0.302 Sum_probs=27.1
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHhhhhh-------cchhhcchhhhhhhhhcCcc
Q 027980 45 GLSSNDAAKQAQKEGAKAAKLAKRQAKRII-------GPIIAAGWDFFEAIYYGGTI 94 (216)
Q Consensus 45 Gls~~eaAk~Aqk~g~kAAKlA~rQAkRI~-------GPiissgWDfFEalYyGGt~ 94 (216)
.|.|.||++.+++.-...=.-+-||+.|=- .. |=.-.|-++.+-++|.+
T Consensus 3 ~~NP~da~RK~~kkKElkKnK~~R~~~R~~~l~~kdp~~-l~~ei~~L~~~e~~~~l 58 (78)
T PF09429_consen 3 SMNPTDAYRKEQKKKELKKNKKERQKVREAKLAKKDPDR-LQEEIDKLEEMEFNGKL 58 (78)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHH-HHHHHHHHHHHHhCCCC
Confidence 588999999988765533222222222211 11 12345667777777665
No 60
>PRK08268 3-hydroxy-acyl-CoA dehydrogenase; Validated
Probab=27.51 E-value=62 Score=30.65 Aligned_cols=45 Identities=24% Similarity=0.462 Sum_probs=36.4
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
||+|--.+..+.|..+.+||+...-+++++++ +++.|...+..|.
T Consensus 18 MG~gIA~~la~aG~~V~l~D~~~e~l~~~~~~-i~~~l~~~~~~G~ 62 (507)
T PRK08268 18 MGAGIAQVAAQAGHTVLLYDARAGAAAAARDG-IAARLAKLVEKGK 62 (507)
T ss_pred HHHHHHHHHHhCCCeEEEEeCCHHHHHHHHHH-HHHHHHHHHHcCC
Confidence 55666667778899999999999999998764 5678888888883
No 61
>PF06134 RhaA: L-rhamnose isomerase (RhaA); InterPro: IPR009308 This family consists of several bacterial L-rhamnose isomerase proteins (5.3.1.14 from EC). This enzyme interconverts L-rhamnose and L-rhamnulose. In some species, including Escherichia coli, this is the first step in rhamnose catabolism. Sequential steps are catalyzed by rhamnulose kinase (rhaB), then rhamnulose-1-phosphate aldolase (rhaD) to yield glycerone phosphate and (S)-lactaldehyde. ; GO: 0008740 L-rhamnose isomerase activity, 0030145 manganese ion binding, 0019299 rhamnose metabolic process; PDB: 1DE5_A 1D8W_D 1DE6_B 3P14_B 3UU0_B.
Probab=27.46 E-value=71 Score=31.10 Aligned_cols=55 Identities=36% Similarity=0.578 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHH-Hhhhhhcchhhcchhhh
Q 027980 23 AAHVERARNVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKR-QAKRIIGPIIAAGWDFF 85 (216)
Q Consensus 23 s~hvE~~R~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~r-QAkRI~GPiissgWDfF 85 (216)
++-|--+ |++++||..|+ |-|.++-|+||..|+--+++|.. ++|.. | +.+.||-|
T Consensus 335 aAwviG~--rn~qKAll~AL---L~p~~~L~~~e~~gd~t~rlAl~Ee~K~~--P-~gaVwd~y 390 (417)
T PF06134_consen 335 AAWVIGT--RNMQKALLKAL---LEPTEALKEAEDEGDFTERLALLEEFKSL--P-FGAVWDYY 390 (417)
T ss_dssp HHHHHHH--HHHHHHHHHHH---TS-HHHHHHHHCTT-HHHHHHHHHHHCCS--S-HHHHHHHH
T ss_pred HHHHHHH--HHHHHHHHHHH---CCCHHHHHHHHHcCCHHHHHHHHHHHhcC--C-HHHHHHHH
Confidence 3444444 46789998888 67999999999999999999875 44443 2 44567755
No 62
>PRK06035 3-hydroxyacyl-CoA dehydrogenase; Validated
Probab=27.28 E-value=69 Score=27.11 Aligned_cols=46 Identities=13% Similarity=0.254 Sum_probs=31.5
Q ss_pred CCCcceeeeeecceeEEEeechhHHHHHHHHHHHHH--HHHHHHhcCC
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAAHVERARNVAIEK--AVVDALSQGL 46 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~hvE~~R~~A~e~--AL~da~~qGl 46 (216)
||++-..|..+.|..+++|++....+++++.+.-+. -|...+.+|.
T Consensus 14 mG~~iA~~la~~G~~V~l~d~~~~~l~~~~~~i~~~~~~l~~~~~~g~ 61 (291)
T PRK06035 14 MGQGIAQVFARTGYDVTIVDVSEEILKNAMELIESGPYGLRNLVEKGK 61 (291)
T ss_pred HHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHHHHhhhhhHHHHHHcCC
Confidence 445555567788999999999999999887654432 2444444443
No 63
>PTZ00493 phosphomethylpyrimidine kinase; Provisional
Probab=26.69 E-value=1.8e+02 Score=26.66 Aligned_cols=58 Identities=14% Similarity=0.060 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhhhcCccc
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIYYGGTIT 95 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalYyGGt~t 95 (216)
-.+-.||+..+.+|.+..+|.+.|+.--.+|-+.+.+.-+.. + +.+++.++...=++|
T Consensus 252 c~fASAIAa~LA~G~~l~~Av~~A~~fv~~aI~~s~~~g~g~-~-----~v~~~~~~~~~~~~~ 309 (321)
T PTZ00493 252 CTLSTAIACYLAKKHNILQSCIESKKYIYNCIRYAYPFGSKS-Q-----GLNHLKASQELPTFT 309 (321)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhcCCCC-C-----CCCHHHHhccCCCcc
Confidence 468899999999999999999999988888777764432211 2 236666665444443
No 64
>PRK05114 hypothetical protein; Provisional
Probab=26.46 E-value=1.3e+02 Score=22.48 Aligned_cols=25 Identities=28% Similarity=0.493 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHH
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQ 56 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aq 56 (216)
|.|.|+ ++....||||..||.+...
T Consensus 14 Q~AVEr-Iq~LMaqGmSsgEAI~~VA 38 (59)
T PRK05114 14 QKAVER-IQELMAQGMSSGEAIALVA 38 (59)
T ss_pred HHHHHH-HHHHHHccccHHHHHHHHH
Confidence 667776 6889999999999987643
No 65
>PF08989 DUF1896: Domain of unknown function (DUF1896); InterPro: IPR015082 This domain is found in a set of hypothetical bacterial proteins. ; PDB: 2APL_A.
Probab=26.45 E-value=1.2e+02 Score=25.66 Aligned_cols=30 Identities=23% Similarity=0.242 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhcCCChHHHHHHHHHH
Q 027980 29 ARNVAIEKAVVDALSQGLSSNDAAKQAQKE 58 (216)
Q Consensus 29 ~R~~A~e~AL~da~~qGls~~eaAk~Aqk~ 58 (216)
.|...--.|..+|+.+|.|+.+|-..|.++
T Consensus 35 ~Rad~Aa~aYe~A~~~G~~~~~A~e~A~~v 64 (144)
T PF08989_consen 35 ERADMAAEAYEQAVRSGYSHDEAEEIAMEV 64 (144)
T ss_dssp HHHHHHHHHHHHHHHHT--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 455556678999999999999988888764
No 66
>PF15459 RRP14: 60S ribosome biogenesis protein Rrp14
Probab=26.36 E-value=73 Score=23.16 Aligned_cols=20 Identities=40% Similarity=0.429 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 027980 53 KQAQKEGAKAAKLAKRQAKR 72 (216)
Q Consensus 53 k~Aqk~g~kAAKlA~rQAkR 72 (216)
++.++...+.+|..+++|||
T Consensus 39 ~~~k~~~Kk~tKe~~K~aKr 58 (64)
T PF15459_consen 39 KQWKKAAKKQTKEESKKAKR 58 (64)
T ss_pred HHHHHHHHHhhHHHHHHHHH
Confidence 55555566666666666665
No 67
>PRK08176 pdxK pyridoxal-pyridoxamine kinase/hydroxymethylpyrimidine kinase; Reviewed
Probab=26.23 E-value=1.8e+02 Score=24.84 Aligned_cols=38 Identities=18% Similarity=0.183 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQ 69 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQ 69 (216)
.+.-.++..++.+|++..||.+.|++--.++-+.+.++
T Consensus 233 D~faa~~~a~l~~g~~l~~Av~~A~~~v~~~i~~t~~~ 270 (281)
T PRK08176 233 DLFCAELVSGLLKGKALTDAAHRAGLRVLEVMRYTQQA 270 (281)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHc
Confidence 67888999999999999999999999888887776543
No 68
>PRK08573 phosphomethylpyrimidine kinase; Provisional
Probab=25.96 E-value=1.3e+02 Score=27.67 Aligned_cols=65 Identities=23% Similarity=0.288 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhc--------chhhhhhhhhcCccce
Q 027980 31 NVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAA--------GWDFFEAIYYGGTITE 96 (216)
Q Consensus 31 ~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiiss--------gWDfFEalYyGGt~tE 96 (216)
=.+.-.++..++.+|+++.||++.|+....++.+.+.+..+. .+|+... -|+..|.|...-.+.|
T Consensus 210 GDaFsAa~aa~l~~G~~l~eAl~~A~~~~~~al~~~~~~g~g-~~~~~~~~~~~~~~~~~~~~~~l~~a~~~l~ 282 (448)
T PRK08573 210 GCSFSAAIAAGLAKGLDPEEAIKTAKKFITMAIKYGVKIGKG-HCPVNPMAWIEIPAERWRAYEELEEALEEIE 282 (448)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhccCCC-CCCcchhHHhhchHHHHHHHHHHHHHHHHHH
Confidence 357788999999999999999999999888887766543332 3555442 3477776666555443
No 69
>PRK10294 6-phosphofructokinase 2; Provisional
Probab=25.95 E-value=1.5e+02 Score=24.80 Aligned_cols=32 Identities=16% Similarity=0.163 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAA 63 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAA 63 (216)
.+.-.++..++.+|+++.+|.|.|...++.+.
T Consensus 256 Daf~ag~l~~l~~g~~~~~al~~a~a~aa~~v 287 (309)
T PRK10294 256 DSMVGAMTLKLAENASLEEMVRFGVAAGSAAT 287 (309)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh
Confidence 68889999999999999999999877665543
No 70
>TIGR03207 cyc_hxne_CoA_dh cyclohexanecarboxyl-CoA dehydrogenase. Cyclohex-1-ene-1carboxyl-CoA is an intermediate in the anaerobic degradation of benzoyl-CoA derived from varioius aromatic compounds, in Rhodopseudomonas palustris but not Thauera aromatica. The aliphatic compound cyclohexanecarboxylate, can be converted to the same intermediate in two steps. The first step is its ligation to coenzyme A. The second is the action of this enzyme, cyclohexanecarboxyl-CoA dehydrogenase.
Probab=25.86 E-value=4.3e+02 Score=22.77 Aligned_cols=47 Identities=17% Similarity=-0.023 Sum_probs=31.8
Q ss_pred HhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhh
Q 027980 42 LSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIY 89 (216)
Q Consensus 42 ~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalY 89 (216)
+.+|.+....+-.|+-...++|..+.++|-+|.|.. +--+|-+|-+|
T Consensus 301 ~~~~~~~~~~~~~aK~~~~~~a~~v~~~a~~v~Gg~-g~~~~~l~r~~ 347 (372)
T TIGR03207 301 KDHGLPHTSEAAMCKWWAPKLAYDVIHQCLLTHGHG-GYDRGDMEQRL 347 (372)
T ss_pred HhCCCCchHHHHHHHHHHHHHHHHHHHHHHHHhcCC-cCCCchHHHHH
Confidence 446655444455666677888888899999999983 34455555554
No 71
>cd01941 YeiC_kinase_like YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time.
Probab=25.83 E-value=1.5e+02 Score=23.93 Aligned_cols=31 Identities=29% Similarity=0.326 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKA 62 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kA 62 (216)
.+.--++.-++.+|+++.+|.+.|...++.+
T Consensus 255 Daf~a~~~~~l~~g~~~~~al~~a~~~Aa~~ 285 (288)
T cd01941 255 DAFVAGLVAGLLEGMSLDDSLRFAQAAAALT 285 (288)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 6788889999999999999999988877665
No 72
>PRK09813 fructoselysine 6-kinase; Provisional
Probab=25.77 E-value=1.6e+02 Score=23.87 Aligned_cols=32 Identities=16% Similarity=0.092 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAA 63 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAA 63 (216)
.+.--++..++.+|+++.||.+.|...++.+.
T Consensus 223 DaF~ag~i~~~~~g~~~~~al~~a~~~aa~~~ 254 (260)
T PRK09813 223 DSFIAGFLCGWLAGMTLPQAMAQGTACAAKTI 254 (260)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 68888999999999999999999987766543
No 73
>PTZ00347 phosphomethylpyrimidine kinase; Provisional
Probab=24.97 E-value=1e+02 Score=28.71 Aligned_cols=36 Identities=19% Similarity=0.175 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAK 67 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~ 67 (216)
.++-.++..++.+|+++.||++.|+.--..+-+.+.
T Consensus 445 D~fsaaiaa~la~G~~l~eAv~~A~~~v~~~i~~~~ 480 (504)
T PTZ00347 445 CTLASAISSFLARGYTVPDAVERAIGYVHEAIVRSC 480 (504)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcC
Confidence 678899999999999999999999888777777664
No 74
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.82 E-value=1.2e+02 Score=22.67 Aligned_cols=25 Identities=24% Similarity=0.502 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhcCCChHHHHHHH
Q 027980 30 RNVAIEKAVVDALSQGLSSNDAAKQA 55 (216)
Q Consensus 30 R~~A~e~AL~da~~qGls~~eaAk~A 55 (216)
.|.|+|+ ++...++|||..||.+..
T Consensus 13 QQ~AVE~-Iq~lMaeGmSsGEAIa~V 37 (60)
T COG3140 13 QQKAVER-IQELMAEGMSSGEAIALV 37 (60)
T ss_pred HHHHHHH-HHHHHHccccchhHHHHH
Confidence 3677776 688999999999997654
No 75
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=24.74 E-value=2.1e+02 Score=24.10 Aligned_cols=42 Identities=19% Similarity=0.344 Sum_probs=27.2
Q ss_pred CCCcceeee-eecceeEEEeechhHHHHHHHHHHHHHHHHHHHhcCCChHH
Q 027980 1 MGSGTVACG-VKEGVKLYFYNIRAAHVERARNVAIEKAVVDALSQGLSSND 50 (216)
Q Consensus 1 mGsGtlACa-vKEGVKLY~ynIRs~hvE~~R~~A~e~AL~da~~qGls~~e 50 (216)
||.||..++ .+.|.-+|..+|+.. -+-+.+++.+.+. ++..+
T Consensus 115 iGggtt~i~i~~~G~i~~~~~~~~G------G~~it~~Ia~~~~--i~~~~ 157 (239)
T TIGR02529 115 VGGGTTGISILKKGKVIYSADEPTG------GTHMSLVLAGAYG--ISFEE 157 (239)
T ss_pred eCCCcEEEEEEECCeEEEEEeeecc------hHHHHHHHHHHhC--CCHHH
Confidence 577776654 488888887777655 3446667766664 44443
No 76
>PRK10057 rpsV 30S ribosomal subunit S22; Reviewed
Probab=24.55 E-value=32 Score=24.32 Aligned_cols=10 Identities=50% Similarity=0.833 Sum_probs=8.0
Q ss_pred HHHhhhhhcc
Q 027980 67 KRQAKRIIGP 76 (216)
Q Consensus 67 ~rQAkRI~GP 76 (216)
-||||+|+|-
T Consensus 4 NrqARHiLGl 13 (44)
T PRK10057 4 NRQARHILGL 13 (44)
T ss_pred chhhhhhhcc
Confidence 4899999883
No 77
>COG0271 BolA Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]
Probab=23.98 E-value=76 Score=24.57 Aligned_cols=19 Identities=37% Similarity=0.447 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHhcCC
Q 027980 28 RARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 28 ~~R~~A~e~AL~da~~qGl 46 (216)
-+|||++-++|.|.+..|+
T Consensus 56 v~rHr~V~~~L~del~~~i 74 (90)
T COG0271 56 VARHRLVYSALKDELSGGI 74 (90)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 3799999999999999874
No 78
>PF09552 RE_BstXI: BstXI restriction endonuclease; InterPro: IPR018578 This entry represents the restriction endonuclease BstXI which recognises and cleaves at CCANNNNN^NTGG.
Probab=23.49 E-value=2.4e+02 Score=26.41 Aligned_cols=62 Identities=24% Similarity=0.390 Sum_probs=40.1
Q ss_pred cceeEEEeechhHHHHHHHHH------HHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH-----HHHHHhhhhh
Q 027980 12 EGVKLYFYNIRAAHVERARNV------AIEKAVVDALSQGLSSNDAAKQAQKEGAKAAK-----LAKRQAKRII 74 (216)
Q Consensus 12 EGVKLY~ynIRs~hvE~~R~~------A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAK-----lA~rQAkRI~ 74 (216)
.|+.+|=|-=+-. ++++|-. -...++..++..|||.+||-+.-...-..|.+ ..+.++.||+
T Consensus 150 aGIr~yEYAs~et-i~k~rLQlea~~Wl~~dS~e~~~~~gm~~~d~~~rk~~~l~~~~~~gLLd~~~L~e~rii 222 (287)
T PF09552_consen 150 AGIRVYEYASKET-IEKCRLQLEAIFWLCHDSLESAIEYGMSAEDAIKRKDFSLNEAQQQGLLDYERLIEIRII 222 (287)
T ss_pred CceecccccCHhH-HHHHHHHHHhHHHhhhhhHhhHhhcCCCHHHHHHhhhhhHHHHHhccccchHHHHHhhhc
Confidence 4666776654433 7777765 35678888999999999998754333333332 2445677775
No 79
>PRK08269 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=23.34 E-value=1.3e+02 Score=26.64 Aligned_cols=48 Identities=17% Similarity=0.218 Sum_probs=36.2
Q ss_pred CCCcceeeeeecceeEEEeechhH-------HHHHHHHHHHHHHHHHHHhcCCChH
Q 027980 1 MGSGTVACGVKEGVKLYFYNIRAA-------HVERARNVAIEKAVVDALSQGLSSN 49 (216)
Q Consensus 1 mGsGtlACavKEGVKLY~ynIRs~-------hvE~~R~~A~e~AL~da~~qGls~~ 49 (216)
||+|--+|...-|....+|.+... -+++++++. ++.|..++..|+-.+
T Consensus 1 MG~giA~~~a~~G~~V~l~d~~~~~~~~~~~~~~~~~~~i-~~~~~~~~~~g~~~~ 55 (314)
T PRK08269 1 MGQGIALAFAFAGHDVTLIDFKPRDAAGWRALDAEARAEI-ERTLAALVALGRIDA 55 (314)
T ss_pred CcHHHHHHHHhCCCeEEEEeCCcccchhhHHHHHHHHHHH-HHHHHHHHHcCCCCh
Confidence 888888888888999999998773 466676654 567788888876543
No 80
>COG3134 Predicted outer membrane lipoprotein [Function unknown]
Probab=23.20 E-value=27 Score=30.46 Aligned_cols=38 Identities=37% Similarity=0.613 Sum_probs=21.8
Q ss_pred cccccccccccccccccccchhhhccccccccccceee
Q 027980 102 TGTLFGAYAGGFLGEERLGRFGYLVGSHLGSWAGGRIG 139 (216)
Q Consensus 102 tGTL~Gty~GGf~GE~RlGr~GYLvGShlGSWvGGRIG 139 (216)
.||.+|+.+||.+|.|-=|--|-=+-.--|...||=+|
T Consensus 72 aGt~iGAv~GGl~G~Q~GgG~Gk~~aTvAGAv~GGyaG 109 (179)
T COG3134 72 AGSVLGAVAGGVIGHQFGGGRGKDVATVAGALGGGYAG 109 (179)
T ss_pred hhhhhHHHhhhhccccccCCCcchhhhhhhhhcccccc
Confidence 46777777777777775554444444444444444433
No 81
>cd08788 CARD_NOD2_2_CARD15 Caspase activation and recruitment domain of NOD2, repeat 2. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 2. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=23.09 E-value=3.5e+02 Score=21.16 Aligned_cols=54 Identities=22% Similarity=0.217 Sum_probs=34.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhcCCChH-----------HHHHHHHHHHHHHHHHHHHHhhhhhc
Q 027980 21 IRAAHVERARNVAIEKAVVDALSQGLSSN-----------DAAKQAQKEGAKAAKLAKRQAKRIIG 75 (216)
Q Consensus 21 IRs~hvE~~R~~A~e~AL~da~~qGls~~-----------eaAk~Aqk~g~kAAKlA~rQAkRI~G 75 (216)
-|.+-|++.| .-++.+|.+.+..|-=.. -.+.||..--+.+++.+-.-||..+.
T Consensus 4 ~Rp~lV~rl~-~~V~~~Ld~ll~~G~is~~Ecd~Ir~p~~T~sqqARrLLD~V~~KG~~A~~~ll~ 68 (81)
T cd08788 4 QRPALVRRLQ-HHVDGALELLLTRGFFSSYDCDEIRLPIFTPSQQARRLLDLVKAKGEGAAKFLLE 68 (81)
T ss_pred ccHHHHHHHH-HHHHHHHHHHHHcCCccHhhcchhhcCCCChHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 3788899999 459999999999885221 13445555555555555555554443
No 82
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=22.96 E-value=3.4e+02 Score=21.46 Aligned_cols=14 Identities=36% Similarity=0.397 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHH
Q 027980 29 ARNVAIEKAVVDAL 42 (216)
Q Consensus 29 ~R~~A~e~AL~da~ 42 (216)
.|+..|.+.|.+|-
T Consensus 39 ~R~~~I~~~l~~Ae 52 (164)
T PRK14473 39 ERTRRIEESLRDAE 52 (164)
T ss_pred HHHHHHHHHHHHHH
Confidence 45556666665554
No 83
>COG4690 PepD Dipeptidase [Amino acid transport and metabolism]
Probab=22.89 E-value=1.7e+02 Score=29.05 Aligned_cols=52 Identities=19% Similarity=0.215 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcc
Q 027980 28 RARNVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAG 81 (216)
Q Consensus 28 ~~R~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissg 81 (216)
++.|++|++.+.+.. |.++.||....++...|-|..+..+.+++.+-||..+
T Consensus 401 ~a~q~~~~~~~e~~~--~~~~~ea~~~Le~~~~k~a~~~~k~~~~l~~~lV~~~ 452 (464)
T COG4690 401 MAKQHKILQETERLR--GSSPKEAQADLEQPNEKRAEEAFKAWHALLHKLVAMG 452 (464)
T ss_pred HHHHHHHHHHHHHhh--ccChHHHHHHHhccChHHHHHHHHHHHHHHHHHHHhc
Confidence 455667777766543 7899999999999999999999999999999988765
No 84
>cd01173 pyridoxal_pyridoxamine_kinase Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and require its precursors in the form of vitamin B6 (pyridoxal, pyridoxine, and pyridoxamine) from their diet. Pyridoxal kinase encoding genes are also found in many other species including yeast and bacteria.
Probab=22.37 E-value=2.3e+02 Score=23.05 Aligned_cols=35 Identities=14% Similarity=0.065 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLA 66 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA 66 (216)
.++-.++..++.+|+++.+|.+.|+.--.++-|.+
T Consensus 218 D~f~a~~~~~l~~g~~~~~a~~~A~~~~~~~i~~~ 252 (254)
T cd01173 218 DLFAALLLARLLKGKSLAEALEKALNFVHEVLEAT 252 (254)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHh
Confidence 67888999999999999999999988776665543
No 85
>PF00742 Homoserine_dh: Homoserine dehydrogenase; InterPro: IPR001342 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway. Additionally, several important metabolic intermediates are produced by these reactions, such as diaminopimelic acid, an essential component of bacterial cell wall biosynthesis, and dipicolinic acid, which is involved in sporulation in Gram-positive bacteria. Members of the animal kingdom do not posses this pathway and must therefore acquire these essential amino acids through their diet. Research into improving the metabolic flux through this pathway has the potential to increase the yield of the essential amino acids in important crops, thus improving their nutritional value. Additionally, since the enzymes are not present in animals, inhibitors of them are promising targets for the development of novel antibiotics and herbicides. For more information see []. Homoserine dehydrogenase (1.1.1.3 from EC) catalyses the third step in the aspartate pathway; theNAD(P)-dependent reduction of aspartate beta-semialdehyde into homoserine [, ]. Homoserine is an intermediate in the biosynthesis of threonine, isoleucine, and methionine. The enzyme can be found in a monofunctional form, in some bacteria and yeast, or a bifunctional form consisting of an N-terminal aspartokinase domain and a C-terminal homoserine dehydrogenase domain, as found in bacteria such as Escherichia coli and in plants. Structural analysis of the yeast monofunctional enzyme (P31116 from SWISSPROT) indicates that the enzyme is a dimer composed of three distinct regions; an N-terminal nucleotide-binding domain, a short central dimerisation region, and a C-terminal catalytic domain []. The N-terminal domain forms a modified Rossman fold, while the catalytic domain forms a novel alpha-beta mixed sheet. This entry represents the catalytic domain of homoserine dehydrogenase.; GO: 0006520 cellular amino acid metabolic process, 0055114 oxidation-reduction process; PDB: 2EJW_E 3ING_A 3JSA_A 3C8M_A 1TVE_A 1EBU_D 1EBF_B 1Q7G_A 3DO5_A 3MTJ_A.
Probab=22.25 E-value=88 Score=26.08 Aligned_cols=22 Identities=36% Similarity=0.589 Sum_probs=15.0
Q ss_pred HHHHHhc-CCChHHHHHHHHHHH
Q 027980 38 VVDALSQ-GLSSNDAAKQAQKEG 59 (216)
Q Consensus 38 L~da~~q-Gls~~eaAk~Aqk~g 59 (216)
+.+.+.+ |++.+||-|+||+.|
T Consensus 29 IL~~m~~~g~~f~~al~eAq~lG 51 (179)
T PF00742_consen 29 ILTRMEEEGLSFSEALKEAQELG 51 (179)
T ss_dssp HHHHHHTHT--HHHHHHHHHHTT
T ss_pred HHHHHhcCCCCHHHHHHHHHHcC
Confidence 3344555 999999999999876
No 86
>PRK09850 pseudouridine kinase; Provisional
Probab=22.10 E-value=1.8e+02 Score=24.50 Aligned_cols=32 Identities=16% Similarity=0.160 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAA 63 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAA 63 (216)
.+.--++..++.+|+++.||.+.|...++.+.
T Consensus 256 DaF~agfi~~l~~g~~~~eal~~a~a~aa~~~ 287 (313)
T PRK09850 256 DAMMAGLASCWVDGMPFAESVRFAQGCSSMAL 287 (313)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh
Confidence 56778889999999999999999887776654
No 87
>PF14613 DUF4449: Protein of unknown function (DUF4449)
Probab=22.06 E-value=1.3e+02 Score=25.41 Aligned_cols=28 Identities=14% Similarity=0.157 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHH
Q 027980 28 RARNVAIEKAVVDALSQGLSSNDAAKQA 55 (216)
Q Consensus 28 ~~R~~A~e~AL~da~~qGls~~eaAk~A 55 (216)
++=.+++++||.+++.+++..-|+--..
T Consensus 29 ~~vR~alqKalE~qIr~~~~~~D~~l~~ 56 (164)
T PF14613_consen 29 KVVRPALQKALEKQIRDAFEKLDRFLYD 56 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 3345677888888887777777764333
No 88
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=22.05 E-value=3.2e+02 Score=25.10 Aligned_cols=42 Identities=21% Similarity=0.260 Sum_probs=26.3
Q ss_pred cchhhh---hhhhhcCccceeeeeccccccccccccccccccccchhhhcccc
Q 027980 80 AGWDFF---EAIYYGGTITEGFIRGTGTLFGAYAGGFLGEERLGRFGYLVGSH 129 (216)
Q Consensus 80 sgWDfF---EalYyGGt~tEgflRGtGTL~Gty~GGf~GE~RlGr~GYLvGSh 129 (216)
--+|+- ..=||+|++.|++....|. .++..|| ||.--|++..
T Consensus 250 ~~~Dl~lvRgldYYTG~vFE~~~~~~~~-~~~i~gG-------GRYD~L~~~f 294 (430)
T CHL00201 250 YKINYKLVRGLDYYNDTAFEIKTLSSNG-QDTICGG-------GRYDSLIHQL 294 (430)
T ss_pred EEECcccccCCccccccEEEEEECCCCC-cceeeec-------cchHHHHHHh
Confidence 446765 5579999999999853211 1233344 7776666653
No 89
>PF07916 TraG_N: TraG-like protein, N-terminal region; InterPro: IPR012931 This domain is found in the N-terminal region of the TraG protein (P33790 from SWISSPROT) from Escherichia coli. This is a membrane-spanning protein, with three predicted transmembrane segments and two periplasmic regions []. The TraG protein is known to be essential for DNA transfer in the process of conjugation, with the N-terminal portion being required for F pilus assembly [, ]. The protein is thought to interact with the periplasmic domain of TraN (P24082 from SWISSPROT) to stabilise mating-cell interactions [].
Probab=22.03 E-value=3.2e+02 Score=24.53 Aligned_cols=83 Identities=22% Similarity=0.246 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHHHhc-----CCChH-HHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhhhhhhhcCccceeee-
Q 027980 27 ERARNVAIEKAVVDALSQ-----GLSSN-DAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFFEAIYYGGTITEGFI- 99 (216)
Q Consensus 27 E~~R~~A~e~AL~da~~q-----Gls~~-eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfFEalYyGGt~tEgfl- 99 (216)
+-.||..+.+++.|++.+ |.++. -++-+|.........-....|++.+-++.+ +||++.|+=.+.=-++
T Consensus 279 ~~~~q~~~~n~~~~~~~~~~~~~~~~~~~~~~~~a~~q~~~~~~~~~~~~~~~lP~~~~----~l~~i~~~~~Piv~~l~ 354 (466)
T PF07916_consen 279 DIMKQAMMINALRDGVASFAASSGDSAAAYAAAQAEQQQRLSWAASGSMAQQWLPMMQA----FLEMIIYALFPIVLLLS 354 (466)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence 445677777777777766 33222 234444555555556666777887777665 7888888876543332
Q ss_pred --e---ccccccccccccc
Q 027980 100 --R---GTGTLFGAYAGGF 113 (216)
Q Consensus 100 --R---GtGTL~Gty~GGf 113 (216)
. ++..+++.|.+.|
T Consensus 355 ~~~~g~~~~~~~~~y~~~~ 373 (466)
T PF07916_consen 355 LLPLGTGGLKVLKGYFGTF 373 (466)
T ss_pred HHhhhhhHHHHHHHHHHHH
Confidence 2 3444555555444
No 90
>TIGR00687 pyridox_kin pyridoxal kinase. ThiD and related proteins form an outgroup.
Probab=21.73 E-value=2.5e+02 Score=23.58 Aligned_cols=39 Identities=13% Similarity=0.032 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHh
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQA 70 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQA 70 (216)
.+.-.++..++.+|.++.+|.+.|...-.++-|.+...-
T Consensus 223 D~f~A~~l~~l~~g~~~~~al~~A~~~v~~~l~~t~~~~ 261 (286)
T TIGR00687 223 DLIAALLLATLLHGNSLKEALEKTVSAVYHVLVTTIALG 261 (286)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHcC
Confidence 678889999999999999999999988777777766543
No 91
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=21.41 E-value=2.7e+02 Score=22.32 Aligned_cols=22 Identities=27% Similarity=0.291 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 027980 51 AAKQAQKEGAKAAKLAKRQAKR 72 (216)
Q Consensus 51 aAk~Aqk~g~kAAKlA~rQAkR 72 (216)
|.+++.+.-.++.-.|..++||
T Consensus 51 a~~e~~~~~~r~~s~a~~~~rr 72 (188)
T PRK02292 51 AEREIEQLREQELSSAKLEAKR 72 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333334444443
No 92
>TIGR00196 yjeF_cterm yjeF C-terminal region, hydroxyethylthiazole kinase-related. The present model may hit hydroxyethylthiazole kinase, an enzyme associated with thiamine biosynthesis.
Probab=21.22 E-value=3.5e+02 Score=22.76 Aligned_cols=37 Identities=27% Similarity=0.215 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHH
Q 027980 33 AIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAKRQ 69 (216)
Q Consensus 33 A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~rQ 69 (216)
.+-.++.-.+.+|+++.||++.|.-.-..|+..+.++
T Consensus 215 ~lag~iaa~la~g~~~~~A~~~a~~~~~~a~~~~~~~ 251 (272)
T TIGR00196 215 VLAGLIGGLLAQNLDPFDAACNAAFAHGLAGDLALKN 251 (272)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 3666777888899999999999987777777666543
No 93
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=21.12 E-value=1.3e+02 Score=25.31 Aligned_cols=50 Identities=10% Similarity=0.153 Sum_probs=37.0
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh--hhhhhcCccce
Q 027980 46 LSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF--EAIYYGGTITE 96 (216)
Q Consensus 46 ls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF--EalYyGGt~tE 96 (216)
++..+....|+ .++..|+...+++=+.+|..|+.-.-+| |.++.||.+.+
T Consensus 206 ~~~~~l~~~~~-~gd~~a~~~~~~~~~~la~~l~n~~~~ldP~~IvlgG~~~~ 257 (303)
T PRK13310 206 LQAPEIIALYY-QGDEQAVAHVERYLDLLAICLGNILTIVDPHLVVLGGGLSN 257 (303)
T ss_pred CCHHHHHHHHH-cCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEECCcccC
Confidence 55666655554 5788888889998889999887764443 78888997765
No 94
>PRK09557 fructokinase; Reviewed
Probab=21.02 E-value=1.4e+02 Score=25.14 Aligned_cols=50 Identities=22% Similarity=0.372 Sum_probs=34.4
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhcchhhh--hhhhhcCccce
Q 027980 46 LSSNDAAKQAQKEGAKAAKLAKRQAKRIIGPIIAAGWDFF--EAIYYGGTITE 96 (216)
Q Consensus 46 ls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GPiissgWDfF--EalYyGGt~tE 96 (216)
++..+..+.+ +.++..|+..-+++-+.+|-.|+.-.-+| |.++.||.+..
T Consensus 205 ~~~~~l~~~~-~~gd~~a~~~l~~~~~~La~~l~~l~~~ldP~~IvlgG~~~~ 256 (301)
T PRK09557 205 LKGSEIIRLV-EEGDPVAELAFRRYEDRLAKSLAHVINILDPDVIVLGGGMSN 256 (301)
T ss_pred CCHHHHHHHH-HcCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEcCcccc
Confidence 4566666555 55788888888888888887766554443 67888887654
No 95
>cd01166 KdgK 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the glycolysis and therefore use polymers, like pectin and xylan as carbon sources.
Probab=20.80 E-value=2.3e+02 Score=22.91 Aligned_cols=31 Identities=19% Similarity=0.207 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKA 62 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kA 62 (216)
.+.--++.-++.+|+++.+|.+.|...++..
T Consensus 257 D~f~a~~~~~l~~g~~~~~a~~~a~~~aa~~ 287 (294)
T cd01166 257 DAFAAGFLAGLLEGWDLEEALRFANAAAALV 287 (294)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 6788899999999999999999987765543
No 96
>PF15604 Toxin_43: Putative toxin 43
Probab=20.69 E-value=2.5e+02 Score=23.76 Aligned_cols=54 Identities=35% Similarity=0.489 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHH----HHHH-hcCCChHHHHHHHHHHHHHHHHHHHHHhhhhhcc-hhhcchhh
Q 027980 26 VERARNVAIEKAV----VDAL-SQGLSSNDAAKQAQKEGAKAAKLAKRQAKRIIGP-IIAAGWDF 84 (216)
Q Consensus 26 vE~~R~~A~e~AL----~da~-~qGls~~eaAk~Aqk~g~kAAKlA~rQAkRI~GP-iissgWDf 84 (216)
-.++|.. ++.=| .+.+ +.+++|.+|-.+|.+.+++- -+-+| -+=.| +|+-|+|.
T Consensus 46 ~~~ar~~-~~~ki~e~~~~~l~s~~~~~~~a~~~A~~~A~~~---m~tlA-ALHNPD~iAGG~~~ 105 (152)
T PF15604_consen 46 AQRARRE-LRDKIEELIEDELLSKGMSPREAEIQAEKQAKEW---MKTLA-ALHNPDMIAGGKDS 105 (152)
T ss_pred HHHHHHH-HHHHHHHHHHHHhhcccCChHHHHHHHHHHHHHH---HHHHH-hhcCcchhcCCCcc
Confidence 3444544 44333 3344 56666666666555443322 11111 23355 56666765
No 97
>COG3404 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]
Probab=20.67 E-value=1.8e+02 Score=26.16 Aligned_cols=36 Identities=25% Similarity=0.142 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHH
Q 027980 28 RARNVAIEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLA 66 (216)
Q Consensus 28 ~~R~~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA 66 (216)
.+|+.+|++||..|..- |-|-|.++.+.-....+++
T Consensus 102 ~~R~~~lQ~Alk~Aa~v---P~~ia~~~~~~l~l~e~l~ 137 (208)
T COG3404 102 AARRKALQNALKEAAKV---PLDIATLMVDLLELLEKLV 137 (208)
T ss_pred HHHHHHHHHHHHHHHhC---hHHHHHHHHHHHHHHHHHH
Confidence 68999999999999874 4455554444444333433
No 98
>cd01168 adenosine_kinase Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine levels and the preservation of intracellular adenylate pools. Adenosine kinase is involved in the purine salvage pathway.
Probab=20.59 E-value=2.1e+02 Score=23.73 Aligned_cols=32 Identities=16% Similarity=0.145 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKAA 63 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kAA 63 (216)
.+.-.++..++.+|+++.+|.+.|...++.+.
T Consensus 273 Daf~ag~l~~l~~g~~~~~a~~~a~~~Aa~~v 304 (312)
T cd01168 273 DAFAGGFLYGLVQGEPLEECIRLGSYAAAEVI 304 (312)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 68888999999999999999999887665543
No 99
>PRK11280 hypothetical protein; Provisional
Probab=20.50 E-value=8.3 Score=32.99 Aligned_cols=39 Identities=36% Similarity=0.593 Sum_probs=28.0
Q ss_pred ccccccccccccccccccccc----hhhhccccccccccceee
Q 027980 101 GTGTLFGAYAGGFLGEERLGR----FGYLVGSHLGSWAGGRIG 139 (216)
Q Consensus 101 GtGTL~Gty~GGf~GE~RlGr----~GYLvGShlGSWvGGRIG 139 (216)
+.||+.|+.+||++|.+--|- ++=++|.-+|.++|.+|+
T Consensus 65 ~~Gtv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~i~ 107 (170)
T PRK11280 65 IAGSVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQIQ 107 (170)
T ss_pred chhHHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHHHH
Confidence 689999999999998864322 456666666666666654
No 100
>cd01684 Tet_like_IV EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit the accommodation of aminoacyl-tRNA into ribosomal A site and therefore prevent the addition of new amino acids to the growing polypeptide. RPPs Tet(M) confer tetracycline resistance by releasing tetracycline from the ribosome and thereby freeing the ribosome from inhibitory effects of the drug, such that aa-tRNA can bind to the A site and protein synthesis can continue.
Probab=20.45 E-value=3.5e+02 Score=20.39 Aligned_cols=30 Identities=30% Similarity=0.450 Sum_probs=20.9
Q ss_pred EEeechhHHHHHHHHHHHHHHHHHHHhcCC
Q 027980 17 YFYNIRAAHVERARNVAIEKAVVDALSQGL 46 (216)
Q Consensus 17 Y~ynIRs~hvE~~R~~A~e~AL~da~~qGl 46 (216)
+..+|...-+-+.=..|+++.+.+++.+|.
T Consensus 43 f~~~~~~~~ip~~~~~aie~g~~~al~~G~ 72 (115)
T cd01684 43 YESEVSLGSLPRSFQNAVEETVRETLQQGL 72 (115)
T ss_pred EEEEecCCcCCHHHHHHHHHHHHHHHhcCC
Confidence 444444333445557799999999999995
No 101
>PF14748 P5CR_dimer: Pyrroline-5-carboxylate reductase dimerisation; PDB: 2RCY_D 3TRI_A 2IZZ_B 2GR9_B 2GRA_B 2GER_C 1YQG_A 2AG8_A 3GT0_A 2AMF_E ....
Probab=20.30 E-value=3.8e+02 Score=20.20 Aligned_cols=34 Identities=35% Similarity=0.344 Sum_probs=26.2
Q ss_pred HHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHH
Q 027980 34 IEKAVVDALSQGLSSNDAAKQAQKEGAKAAKLAK 67 (216)
Q Consensus 34 ~e~AL~da~~qGls~~eaAk~Aqk~g~kAAKlA~ 67 (216)
++.-...++.+|+++.+|-+-+..--.=++++..
T Consensus 24 ~eal~~a~v~~Gl~~~~A~~lv~~t~~G~a~ll~ 57 (107)
T PF14748_consen 24 IEALADAAVAQGLPREEARKLVAQTFIGAAKLLE 57 (107)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4455556788999999999999988888888887
No 102
>TIGR03828 pfkB 1-phosphofructokinase. This enzyme acts in concert with the fructose-specific phosphotransferase system (PTS) which imports fructose as fructose-1-phosphate. The action of 1-phosphofructokinase results in beta-D-fructose-1,6-bisphosphate and is an entry point into glycolysis (GenProp0688).
Probab=20.28 E-value=2.2e+02 Score=23.24 Aligned_cols=31 Identities=26% Similarity=0.348 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 027980 32 VAIEKAVVDALSQGLSSNDAAKQAQKEGAKA 62 (216)
Q Consensus 32 ~A~e~AL~da~~qGls~~eaAk~Aqk~g~kA 62 (216)
.+.-.++..++.+|.++.+|.+.|...++.+
T Consensus 251 DaF~a~~l~~l~~g~~~~~a~~~a~~~Aa~~ 281 (304)
T TIGR03828 251 DSMVAGFLAGLESGLSLEEALRLAVAAGSAA 281 (304)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 6888999999999999999999988776544
Done!