Query 041500
Match_columns 157
No_of_seqs 107 out of 1590
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 07:48:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041500.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041500hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1575 Voltage-gated shaker-l 99.9 1.5E-23 3.2E-28 166.4 11.6 136 2-137 190-335 (336)
2 COG0667 Tas Predicted oxidored 99.9 1E-22 2.2E-27 162.4 11.9 126 2-127 180-309 (316)
3 PRK10625 tas putative aldo-ket 99.8 1.8E-20 3.9E-25 151.1 12.3 126 2-127 208-339 (346)
4 TIGR01293 Kv_beta voltage-depe 99.8 9.3E-20 2E-24 145.4 10.8 124 2-125 179-316 (317)
5 PRK09912 L-glyceraldehyde 3-ph 99.8 2.5E-19 5.5E-24 144.5 11.2 127 2-128 196-334 (346)
6 PF00248 Aldo_ket_red: Aldo/ke 99.8 9.9E-19 2.1E-23 136.7 9.6 120 2-126 162-282 (283)
7 COG0656 ARA1 Aldo/keto reducta 99.7 7.5E-18 1.6E-22 131.4 10.0 91 12-128 174-265 (280)
8 PRK11172 dkgB 2,5-diketo-D-glu 99.7 2.4E-17 5.3E-22 128.6 9.6 91 11-128 162-253 (267)
9 PLN02587 L-galactose dehydroge 99.7 3.6E-17 7.9E-22 130.3 10.6 108 11-127 188-300 (314)
10 KOG1577 Aldo/keto reductase fa 99.7 4.6E-17 1E-21 127.5 8.8 96 10-128 190-286 (300)
11 PRK11565 dkgA 2,5-diketo-D-glu 99.7 1E-16 2.2E-21 125.7 10.7 93 10-127 169-262 (275)
12 PRK10376 putative oxidoreducta 99.7 2E-16 4.4E-21 124.8 9.9 93 10-127 195-288 (290)
13 cd06660 Aldo_ket_red Aldo-keto 99.7 3.7E-16 7.9E-21 122.3 10.2 111 2-124 173-284 (285)
14 PRK14863 bifunctional regulato 99.6 5.2E-16 1.1E-20 122.7 8.6 113 2-124 165-279 (292)
15 COG4989 Predicted oxidoreducta 99.6 1.6E-14 3.4E-19 110.2 9.4 104 8-128 189-294 (298)
16 COG1453 Predicted oxidoreducta 99.3 1E-11 2.2E-16 99.3 8.7 105 12-139 187-303 (391)
17 KOG1576 Predicted oxidoreducta 99.3 1E-11 2.2E-16 95.8 8.0 130 8-151 210-340 (342)
18 PF11242 DUF2774: Protein of u 79.8 3 6.5E-05 25.3 3.1 23 64-86 15-37 (63)
19 PF00356 LacI: Bacterial regul 74.3 4.9 0.00011 22.8 2.9 41 65-111 2-42 (46)
20 PF14502 HTH_41: Helix-turn-he 72.7 4.4 9.5E-05 23.3 2.4 30 62-91 6-37 (48)
21 PRK00979 tetrahydromethanopter 66.6 6.5 0.00014 31.6 3.0 56 1-75 126-190 (308)
22 PF01402 RHH_1: Ribbon-helix-h 63.8 15 0.00032 19.4 3.3 23 60-82 9-31 (39)
23 PF11020 DUF2610: Domain of un 63.7 21 0.00046 22.8 4.3 29 55-83 47-75 (82)
24 PF10668 Phage_terminase: Phag 62.4 23 0.00049 21.4 4.2 17 64-80 24-40 (60)
25 KOG0237 Glycinamide ribonucleo 57.1 12 0.00025 33.0 3.1 82 5-93 52-148 (788)
26 PF04914 DltD_C: DltD C-termin 53.6 3.7 7.9E-05 28.8 -0.4 53 11-76 39-92 (130)
27 COG0761 lytB 4-Hydroxy-3-methy 49.5 31 0.00068 27.5 4.2 44 64-108 229-278 (294)
28 PRK07535 methyltetrahydrofolat 49.3 15 0.00033 28.7 2.4 63 1-81 94-159 (261)
29 PRK01045 ispH 4-hydroxy-3-meth 47.9 33 0.00071 27.5 4.1 74 5-107 196-275 (298)
30 KOG0693 Myo-inositol-1-phospha 47.9 50 0.0011 27.5 5.2 90 50-146 198-288 (512)
31 PF08418 Pol_alpha_B_N: DNA po 47.5 21 0.00046 27.4 3.0 50 58-108 8-60 (253)
32 PF13518 HTH_28: Helix-turn-he 47.4 29 0.00062 19.2 2.9 22 64-86 14-35 (52)
33 PRK12360 4-hydroxy-3-methylbut 46.8 33 0.00072 27.2 4.0 74 5-107 195-274 (281)
34 PF13700 DUF4158: Domain of un 45.4 80 0.0017 22.5 5.6 45 59-106 118-164 (166)
35 PF12651 RHH_3: Ribbon-helix-h 45.3 43 0.00093 18.6 3.3 21 59-79 11-31 (44)
36 PRK08561 rps15p 30S ribosomal 42.5 92 0.002 22.4 5.3 63 60-126 32-96 (151)
37 PRK09856 fructoselysine 3-epim 42.5 15 0.00032 28.3 1.4 52 11-76 93-145 (275)
38 TIGR00216 ispH_lytB (E)-4-hydr 42.4 39 0.00085 26.8 3.8 43 64-107 225-273 (280)
39 PRK11675 LexA regulated protei 37.5 49 0.0011 21.7 3.0 24 59-82 59-82 (90)
40 PF01476 LysM: LysM domain; I 37.1 40 0.00087 17.9 2.3 18 64-81 8-25 (44)
41 PF07027 DUF1318: Protein of u 36.0 94 0.002 20.5 4.2 29 56-84 44-72 (95)
42 COG2250 Uncharacterized conser 34.6 1E+02 0.0022 21.4 4.6 61 74-139 37-97 (132)
43 PF02401 LYTB: LytB protein; 34.6 29 0.00062 27.6 1.9 43 64-107 226-274 (281)
44 PF00816 Histone_HNS: H-NS his 34.5 36 0.00077 21.9 2.1 24 56-79 20-43 (93)
45 PF07287 DUF1446: Protein of u 34.2 31 0.00067 28.4 2.1 41 9-75 59-100 (362)
46 PF01408 GFO_IDH_MocA: Oxidore 34.2 63 0.0014 21.1 3.4 41 9-75 74-115 (120)
47 PF01527 HTH_Tnp_1: Transposas 33.7 44 0.00096 20.1 2.4 24 63-87 24-47 (76)
48 PF13467 RHH_4: Ribbon-helix-h 33.4 69 0.0015 19.7 3.1 24 61-84 22-45 (67)
49 COG0159 TrpA Tryptophan syntha 32.5 1.6E+02 0.0035 23.2 5.7 16 11-26 137-152 (265)
50 COG1026 Predicted Zn-dependent 32.4 1.6E+02 0.0034 27.7 6.3 72 55-126 413-492 (978)
51 PF10723 RepB-RCR_reg: Replica 32.1 95 0.0021 19.9 3.7 26 60-85 51-76 (84)
52 PF10771 DUF2582: Protein of u 32.1 91 0.002 19.0 3.5 27 64-90 24-52 (65)
53 cd00423 Pterin_binding Pterin 32.0 82 0.0018 24.3 4.1 67 1-77 99-167 (258)
54 TIGR03070 couple_hipB transcri 31.2 53 0.0012 18.2 2.3 19 64-82 6-24 (58)
55 TIGR02899 spore_safA spore coa 30.5 62 0.0013 16.8 2.4 17 64-80 6-22 (44)
56 COG4130 Predicted sugar epimer 30.4 80 0.0017 24.4 3.6 51 11-75 86-137 (272)
57 PF02796 HTH_7: Helix-turn-hel 30.1 56 0.0012 17.9 2.2 16 64-79 23-38 (45)
58 PRK10558 alpha-dehydro-beta-de 29.0 2.3E+02 0.0051 22.0 6.2 54 59-112 55-115 (256)
59 PF03851 UvdE: UV-endonuclease 28.8 58 0.0013 25.8 2.8 52 8-74 45-101 (275)
60 PF12162 STAT1_TAZ2bind: STAT1 28.4 39 0.00084 16.3 1.0 15 112-126 8-22 (23)
61 PF13167 GTP-bdg_N: GTP-bindin 27.3 31 0.00068 22.7 0.9 67 59-127 7-80 (95)
62 PRK10328 DNA binding protein, 27.1 1.1E+02 0.0024 21.5 3.6 24 56-79 52-75 (134)
63 COG5484 Uncharacterized conser 26.7 52 0.0011 25.9 2.1 24 64-88 21-44 (279)
64 PF06971 Put_DNA-bind_N: Putat 25.8 68 0.0015 18.5 2.0 13 67-79 33-45 (50)
65 PF00984 UDPG_MGDP_dh: UDP-glu 25.2 1.7E+02 0.0036 19.1 4.1 39 58-97 18-58 (96)
66 PRK10945 gene expression modul 24.8 1.4E+02 0.0031 18.6 3.4 31 96-126 17-47 (72)
67 PLN02438 inositol-3-phosphate 24.7 1.3E+02 0.0029 26.0 4.3 84 55-145 203-287 (510)
68 PF12668 DUF3791: Protein of u 24.7 1.5E+02 0.0033 17.5 3.5 53 63-126 6-58 (62)
69 PRK08334 translation initiatio 24.7 68 0.0015 26.4 2.5 30 71-100 217-249 (356)
70 PF12551 PHBC_N: Poly-beta-hyd 24.0 72 0.0016 18.1 1.8 13 72-84 22-34 (46)
71 cd00086 homeodomain Homeodomai 23.4 1.4E+02 0.0031 16.6 3.2 23 63-85 28-50 (59)
72 PRK06424 transcription factor; 23.4 2.2E+02 0.0048 20.2 4.7 25 59-83 83-107 (144)
73 PF13404 HTH_AsnC-type: AsnC-t 23.3 1.4E+02 0.0029 16.3 2.9 20 64-83 19-38 (42)
74 PF02570 CbiC: Precorrin-8X me 23.3 2E+02 0.0044 21.6 4.6 35 64-98 94-128 (198)
75 PF01371 Trp_repressor: Trp re 23.1 93 0.002 20.1 2.5 16 65-80 52-67 (87)
76 PF03861 ANTAR: ANTAR domain; 22.8 1.4E+02 0.003 17.2 3.1 22 60-81 32-53 (56)
77 PF07498 Rho_N: Rho terminatio 22.7 57 0.0012 17.9 1.2 14 62-75 7-20 (43)
78 COG0826 Collagenase and relate 22.6 1.5E+02 0.0031 24.4 4.1 99 4-126 45-159 (347)
79 PF14096 DUF4274: Domain of un 22.4 89 0.0019 19.4 2.3 26 64-89 6-31 (77)
80 PRK08286 cbiC cobalt-precorrin 22.4 1.3E+02 0.0028 23.0 3.5 45 64-108 107-153 (214)
81 KOG1718 Dual specificity phosp 22.3 2.1E+02 0.0046 21.3 4.4 34 56-89 78-121 (198)
82 PHA01623 hypothetical protein 22.3 1.5E+02 0.0031 17.4 3.0 20 60-79 23-42 (56)
83 COG0497 RecN ATPase involved i 22.1 1.2E+02 0.0027 26.6 3.7 60 50-109 294-353 (557)
84 PF13936 HTH_38: Helix-turn-he 22.0 1E+02 0.0022 16.8 2.2 17 64-80 22-38 (44)
85 PF04967 HTH_10: HTH DNA bindi 22.0 1.1E+02 0.0024 17.8 2.4 19 64-82 25-43 (53)
86 PF00046 Homeobox: Homeobox do 21.9 1.6E+02 0.0035 16.5 3.3 23 62-84 27-49 (57)
87 TIGR00789 flhB_rel flhB C-term 21.3 1.1E+02 0.0023 19.6 2.4 27 60-86 27-54 (82)
88 TIGR03239 GarL 2-dehydro-3-deo 21.3 3.9E+02 0.0085 20.6 6.2 53 60-112 49-108 (249)
89 TIGR00629 uvde UV damage endon 21.3 90 0.0019 25.2 2.6 51 9-74 53-108 (312)
90 cd06547 GH85_ENGase Endo-beta- 21.3 40 0.00087 27.4 0.6 57 10-75 48-105 (339)
91 cd00739 DHPS DHPS subgroup of 21.3 1.7E+02 0.0037 22.7 4.1 69 1-78 99-168 (257)
92 PRK00087 4-hydroxy-3-methylbut 20.9 1.4E+02 0.003 26.6 3.9 42 64-106 223-270 (647)
93 TIGR02127 pyrF_sub2 orotidine 20.9 2.2E+02 0.0048 22.2 4.7 37 73-109 165-207 (261)
94 cd01068 sensor_globin Globin d 20.6 1.6E+02 0.0034 20.1 3.5 74 55-128 13-91 (147)
95 PF12244 DUF3606: Protein of u 20.4 1.2E+02 0.0026 17.8 2.4 19 64-82 22-40 (57)
96 PF10979 DUF2786: Protein of u 20.3 1.7E+02 0.0037 16.1 3.2 20 57-76 2-21 (43)
97 PF11017 DUF2855: Protein of u 20.2 51 0.0011 26.7 1.0 50 75-124 146-197 (314)
No 1
>KOG1575 consensus Voltage-gated shaker-like K+ channel, subunit beta/KCNAB [Energy production and conversion]
Probab=99.90 E-value=1.5e-23 Score=166.41 Aligned_cols=136 Identities=35% Similarity=0.477 Sum_probs=112.8
Q ss_pred Ccccccc-ccccccccchhcCCeEec-ccccCCccCCCCCCCCccC------CCCCCCccc-h-HhhHHHHHHHHHHHHH
Q 041500 2 LQKFSCN-DSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFL------HQPRFQPEN-L-EHNKKLFERVNEIAVK 71 (157)
Q Consensus 2 ~~~~~~~-~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r------~~~~~~~~~-~-~~~~~~~~~l~~ia~~ 71 (157)
|+.|++. ++.+++++|+++||++++ |||+.|.+++..-...+.+ ....+.+.. - ...+.+++++.++|++
T Consensus 190 ysl~~Rd~ee~~i~~~c~~~Gi~li~ysPL~~G~Ltgk~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iA~k 269 (336)
T KOG1575|consen 190 YSLLSRDKEERGIIPLCRELGIGLIAWSPLGRGLLTGKYKLGEDSRNGDKRFQFLGLSPQTEEGDKQKPILEALSKIAEK 269 (336)
T ss_pred chhhhcchhhhhHHHHHHHcCcceEEecccccceeccCcccccccccccccccccccccccchhhhHHHHHHHHHHHHHH
Confidence 5677887 777899999999999999 9999998766544333333 112221110 1 6688899999999999
Q ss_pred hCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhccCCcCCCCCC
Q 041500 72 KGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASADAVRGHRYG 137 (157)
Q Consensus 72 ~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~~~~~~~~~~ 137 (157)
+|+|++|+||+|+++++.|.+||||+++.+|++||++|+.+.|+++++.+|+++.++....+.+|+
T Consensus 270 ~g~T~~qlALawv~~~~~v~~pIpG~s~ve~l~eni~Al~~~Lt~e~~~~l~~~~~~~~~~~~~~~ 335 (336)
T KOG1575|consen 270 HGCTVPQLALAWVLSNGKVSSPIPGASKIEQLKENIGALSVKLTPEEIKELEEIIDKILGFGPRSI 335 (336)
T ss_pred cCCCHHHHHHHHHHHhCCCEEecCCCCcHHHHHHHHhhhhccCCHHHHHHHHHhhccccCcCCCCC
Confidence 999999999999999999999999999999999999999999999999999999988766666654
No 2
>COG0667 Tas Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]
Probab=99.89 E-value=1e-22 Score=162.44 Aligned_cols=126 Identities=32% Similarity=0.453 Sum_probs=113.9
Q ss_pred CccccccccccccccchhcCCeEec-ccccCCccCCCCCC-CCccC-CC-CCCCccchHhhHHHHHHHHHHHHHhCCCHH
Q 041500 2 LQKFSCNDSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSK-ESLFL-HQ-PRFQPENLEHNKKLFERVNEIAVKKGCTPS 77 (157)
Q Consensus 2 ~~~~~~~~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~-~~~~r-~~-~~~~~~~~~~~~~~~~~l~~ia~~~g~s~a 77 (157)
||.+.++...+++++|+++||++++ +||++|.++....+ ..+.| .. +.+..+..++...+++.++++|+++|+|++
T Consensus 180 ynl~~R~~e~~l~~~~~~~gi~~~~~spla~G~Ltgk~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~l~~~a~~~g~t~a 259 (316)
T COG0667 180 YNLLERDAEKELLPLCREEGIGLLAYSPLASGLLTGKYLPGPEGSRASELPRFQRELTERGLAILRALEELAKELGATPA 259 (316)
T ss_pred CccccccchhHHHHHHHHcCCeEEEecCccccccCCCcCCCcchhhccccccchhhhhHHHHHHHHHHHHHHHHhCCCHH
Confidence 7788888788899999999999999 99999998877665 55565 33 566677789999999999999999999999
Q ss_pred HHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhc
Q 041500 78 QLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIAS 127 (157)
Q Consensus 78 qlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~ 127 (157)
|+||+|++++|.|+++|+|+++++||++|++++++.|++++++.|+....
T Consensus 260 q~ALawvl~~~~v~~~I~Ga~~~~qL~en~~A~~~~L~~~~~~~l~~~~~ 309 (316)
T COG0667 260 QVALAWVLAQPGVTSPIVGASKAEQLEENLAALDIKLSEEELAALDEISA 309 (316)
T ss_pred HHHHHHHHhCCCCceEeecCCCHHHHHHHHHHhcCCCCHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999998874
No 3
>PRK10625 tas putative aldo-keto reductase; Provisional
Probab=99.84 E-value=1.8e-20 Score=151.08 Aligned_cols=126 Identities=23% Similarity=0.217 Sum_probs=100.5
Q ss_pred CccccccccccccccchhcCCeEec-ccccCCccCCCCCCC---CccC--CCCCCCccchHhhHHHHHHHHHHHHHhCCC
Q 041500 2 LQKFSCNDSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKE---SLFL--HQPRFQPENLEHNKKLFERVNEIAVKKGCT 75 (157)
Q Consensus 2 ~~~~~~~~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~---~~~r--~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s 75 (157)
||.+..+...+++++|+++||++++ +||++|.+++..... .+.+ ...+|...........++.+.++|+++|+|
T Consensus 208 y~l~~r~~~~~ll~~~~~~gi~via~spL~~G~Ltg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~la~~~g~t 287 (346)
T PRK10625 208 YSLLNRSFEVGLAEVSQYEGVELLAYSCLAFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKAVAAYVDIAKRHGLD 287 (346)
T ss_pred CCcccccchhHHHHHHHHcCCeEEEeccccCeeccCCCCCCCCCCCcccccccccccccchhHHHHHHHHHHHHHHhCCC
Confidence 4455555566899999999999999 999999866542211 1111 112222222345567788999999999999
Q ss_pred HHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhc
Q 041500 76 PSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIAS 127 (157)
Q Consensus 76 ~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~ 127 (157)
++|+||+|++++|.|+++|+|+++++|+++|+++.+++|++++++.|+++..
T Consensus 288 ~aqval~w~l~~~~v~~~I~G~~~~~~l~en~~a~~~~L~~~~~~~l~~~~~ 339 (346)
T PRK10625 288 PAQMALAFVRRQPFVASTLLGATTMEQLKTNIESLHLTLSEEVLAEIEAVHQ 339 (346)
T ss_pred HHHHHHHHHHhCCCCeeEEeCCCCHHHHHHHHhhccCCCCHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999874
No 4
>TIGR01293 Kv_beta voltage-dependent potassium channel beta subunit, animal. Plant beta subunits and their closely related bacterial homologs (in Deinococcus radiudurans, Xylella fastidiosa, etc.) appear more closely related to each other than to animal forms. However, the bacterial species lack convincing counterparts the Kv alpha subunit and the Kv beta homolog may serve as an enzyme. Cutoffs are set for this model such that yeast and plant forms and bacterial close homologs score between trusted and noise cutoffs.
Probab=99.82 E-value=9.3e-20 Score=145.39 Aligned_cols=124 Identities=22% Similarity=0.279 Sum_probs=95.8
Q ss_pred Cccccccc-cccccccchhcCCeEec-ccccCCccCCCC---CCCCccCCC---CCCC----ccchHhhHHHHHHHHHHH
Q 041500 2 LQKFSCND-SSKLLHPCGSFHFCYIA-LPMHVNVKSIDK---SKESLFLHQ---PRFQ----PENLEHNKKLFERVNEIA 69 (157)
Q Consensus 2 ~~~~~~~~-~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~---~~~~~~r~~---~~~~----~~~~~~~~~~~~~l~~ia 69 (157)
||.+.++. ..+++++|+++||++++ +||++|.+++.. ++.+..+.. .++. ..........++.|.++|
T Consensus 179 ~~l~~r~~~e~~l~~~~~~~gi~v~a~spl~~G~Ltg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ia 258 (317)
T TIGR01293 179 YHMFQREKVEVQLPELYHKIGVGAMTWSPLACGLVSGKYDSGIPPYSRATLKGYQWLKDKILSEEGRRQQARLKDLQAIA 258 (317)
T ss_pred cChHhcchhHHHHHHHHHHcCCeEEEeccccccccCCCCCCCCCCcccccccccchhhhhhcchhhHHHHHHHHHHHHHH
Confidence 34444442 55799999999999999 999999876543 222221110 1111 111223566778899999
Q ss_pred HHhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCC--CCCHHHHHHHHhh
Q 041500 70 VKKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSV--KLSPEEMAELESI 125 (157)
Q Consensus 70 ~~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~--~Ls~e~~~~l~~~ 125 (157)
+++|+|++|+||+|++++|+|+++|+|+++++|+++|+++++. +||++++++|+++
T Consensus 259 ~~~g~s~aqlal~w~l~~~~v~~~i~G~~~~~ql~en~~a~~~~~~Ls~e~~~~l~~~ 316 (317)
T TIGR01293 259 ERLGCTLPQLAIAWCLRNEGVSSVLLGASSAEQLMENLGSLQVLPKLSSSIIHEIDSI 316 (317)
T ss_pred HHHCcCHHHHHHHHHhcCCCCeEEEeCCCCHHHHHHHHHHhhccCCCCHHHHHHHHhh
Confidence 9999999999999999999999999999999999999999987 9999999999875
No 5
>PRK09912 L-glyceraldehyde 3-phosphate reductase; Provisional
Probab=99.81 E-value=2.5e-19 Score=144.52 Aligned_cols=127 Identities=21% Similarity=0.272 Sum_probs=98.2
Q ss_pred Cccccccc-cccccccchhcCCeEec-ccccCCccCCCCCCC--CccCC------CCCCCcc-chHhhHHHHHHHHHHHH
Q 041500 2 LQKFSCND-SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKE--SLFLH------QPRFQPE-NLEHNKKLFERVNEIAV 70 (157)
Q Consensus 2 ~~~~~~~~-~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~--~~~r~------~~~~~~~-~~~~~~~~~~~l~~ia~ 70 (157)
||.+.... +.+++++|+++||++++ +||++|.+++...+. ++.|. ..++.+. ..+...+.++.+.++|+
T Consensus 196 ynll~~~~~~~~ll~~~~~~gI~via~spl~~G~Lt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~ 275 (346)
T PRK09912 196 YNLLNRWVDKSGLLDTLQNNGVGCIAFTPLAQGLLTGKYLNGIPQDSRMHREGNKVRGLTPKMLTEANLNSLRLLNEMAQ 275 (346)
T ss_pred CCceecccchhhHHHHHHHcCceEEEehhhcCccccCCCCCCCCCCccccccccchhhhchhhccHHHHHHHHHHHHHHH
Confidence 34444332 35799999999999999 999999876543211 11110 0112221 12445677789999999
Q ss_pred HhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhcc-CCCCCHHHHHHHHhhhcc
Q 041500 71 KKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKAL-SVKLSPEEMAELESIASA 128 (157)
Q Consensus 71 ~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~-~~~Ls~e~~~~l~~~~~~ 128 (157)
++|+|++|+||+|++++|.|+++|||+++++||++|++++ .++|+++++++|+++..+
T Consensus 276 ~~g~t~aq~AL~w~l~~~~v~~~i~G~~~~~ql~en~~a~~~~~L~~e~~~~l~~~~~~ 334 (346)
T PRK09912 276 QRGQSMAQMALSWLLKDERVTSVLIGASRAEQLEENVQALNNLTFSTEELAQIDQHIAD 334 (346)
T ss_pred HhCCCHHHHHHHHHHhCCCCeEEEeCCCCHHHHHHHHhhhcCCCCCHHHHHHHHHhhCc
Confidence 9999999999999999999999999999999999999998 589999999999998744
No 6
>PF00248 Aldo_ket_red: Aldo/keto reductase family; InterPro: IPR023210 The aldo-keto reductase family includes a number of related monomeric NADPH-dependent oxidoreductases, such as aldehyde reductase, aldose reductase, prostaglandin F synthase, xylose reductase, rho crystallin, and many others []. All possess a similar structure, with a beta-alpha-beta fold characteristic of nucleotide binding proteins []. The fold comprises a parallel beta-8/alpha-8-barrel, which contains a novel NADP-binding motif. The binding site is located in a large, deep, elliptical pocket in the C-terminal end of the beta sheet, the substrate being bound in an extended conformation. The hydrophobic nature of the pocket favours aromatic and apolar substrates over highly polar ones []. Binding of the NADPH coenzyme causes a massive conformational change, reorienting a loop, effectively locking the coenzyme in place. This binding is more similar to FAD- than to NAD(P)-binding oxidoreductases []. Some proteins of this entry contain a K+ ion channel beta chain regulatory domain; these are reported to have oxidoreductase activity []. This entry represents the NADP-dependent oxidoreductase domain found in these proteins.; PDB: 1C9W_A 4F40_B 1VBJ_A 1XGD_A 1X97_A 2ACS_A 1EF3_A 2ACU_A 1PWM_A 2NVD_A ....
Probab=99.78 E-value=9.9e-19 Score=136.73 Aligned_cols=120 Identities=26% Similarity=0.370 Sum_probs=93.7
Q ss_pred CccccccccccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHH
Q 041500 2 LQKFSCNDSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLA 80 (157)
Q Consensus 2 ~~~~~~~~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqla 80 (157)
||.+.+....+++++|+++||++++ +||++|.+........... .. ..........+.+.++++++|++++|+|
T Consensus 162 ~n~~~~~~~~~l~~~~~~~gi~v~a~~~l~~G~l~~~~~~~~~~~---~~--~~~~~~~~~~~~l~~~a~~~g~s~~q~a 236 (283)
T PF00248_consen 162 YNLLNRREEEGLLEFCREHGIGVIAYSPLAGGLLTGKYKSPPPPP---SR--ASLRDAQELADALRELAEEHGVSPAQLA 236 (283)
T ss_dssp -BTTBHBGGHHHHHHHHHTT-EEEEESTTGGGCGGTTTTTTTTST---TT--SGSSTHGGGHHHHHHHHHHHTSSHHHHH
T ss_pred cccccccccccccccccccccccccccccccCccccccccCCCcc---cc--cccchhhhhhhhhhhhhhhcccccchhh
Confidence 4556678889999999999999999 9999998654432221110 00 0011145666799999999999999999
Q ss_pred HHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhh
Q 041500 81 LAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIA 126 (157)
Q Consensus 81 L~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~ 126 (157)
|+|+++++.++++|+|+++++|+++|+++++++||+++++.|+++.
T Consensus 237 l~~~l~~~~~~~~i~g~~~~~~l~en~~a~~~~L~~~~~~~i~~~~ 282 (283)
T PF00248_consen 237 LRWVLSHPGVASVIVGASSPEHLEENLAALDFPLTEEELAEIDQIL 282 (283)
T ss_dssp HHHHHTSHTTEEEEEB-SSHHHHHHHHGGSSSG--HHHHHHHHTTH
T ss_pred hhhhhhccccccccCCCCCHHHHHHHHHHhCCCCCHHHHHHHHhhh
Confidence 9999999999999999999999999999999999999999999875
No 7
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=99.75 E-value=7.5e-18 Score=131.45 Aligned_cols=91 Identities=33% Similarity=0.491 Sum_probs=82.1
Q ss_pred cccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCC
Q 041500 12 KLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGND 90 (157)
Q Consensus 12 ~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v 90 (157)
+++++|++|||.+++ |||++|.. .+.. ..|.+||++||.|+||++|+|+++++
T Consensus 174 el~~~~~~~gI~v~AysPL~~g~~--------------l~~~----------~~l~~Ia~k~g~t~AQv~L~W~i~~g-- 227 (280)
T COG0656 174 ELLPFCQRHGIAVEAYSPLAKGGK--------------LLDN----------PVLAEIAKKYGKTPAQVALRWHIQRG-- 227 (280)
T ss_pred HHHHHHHHcCCEEEEECCcccccc--------------cccC----------hHHHHHHHHhCCCHHHHHHHHHHhCC--
Confidence 399999999999999 99998731 1111 28999999999999999999999999
Q ss_pred eEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhcc
Q 041500 91 VCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASA 128 (157)
Q Consensus 91 ~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~ 128 (157)
..+||++++++|+++|++++++.||+||++.|+.+...
T Consensus 228 v~~Ipks~~~~ri~eN~~~~~f~Ls~ed~~~i~~l~~~ 265 (280)
T COG0656 228 VIVIPKSTTPERIRENLAAFDFELSEEDMAAIDALDRG 265 (280)
T ss_pred cEEecCCCCHHHHHHHHhhhcCCCCHHHHHHHHhhccc
Confidence 88999999999999999999999999999999999865
No 8
>PRK11172 dkgB 2,5-diketo-D-gluconate reductase B; Provisional
Probab=99.72 E-value=2.4e-17 Score=128.65 Aligned_cols=91 Identities=26% Similarity=0.388 Sum_probs=81.5
Q ss_pred ccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCC
Q 041500 11 SKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGN 89 (157)
Q Consensus 11 ~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~ 89 (157)
.+++++|+++||++++ +||++|.+.. . ..+.++|+++|+|++|+||+|+++++
T Consensus 162 ~~ll~~~~~~gi~v~a~spl~~G~~~~---------------~----------~~l~~~a~~~~~s~aqval~w~l~~~- 215 (267)
T PRK11172 162 RKVVAFAKEHGIHVTSYMTLAYGKVLK---------------D----------PVIARIAAKHNATPAQVILAWAMQLG- 215 (267)
T ss_pred HHHHHHHHHCCCEEEEECCCCCCcccC---------------C----------HHHHHHHHHhCCCHHHHHHHHHHhCC-
Confidence 6899999999999999 9999994211 0 26889999999999999999999997
Q ss_pred CeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhcc
Q 041500 90 DVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASA 128 (157)
Q Consensus 90 v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~ 128 (157)
.++|+|+++++|+++|+++++++||++++++|+++.+.
T Consensus 216 -~~~i~g~~~~~~l~~n~~~~~~~L~~~~~~~i~~~~~~ 253 (267)
T PRK11172 216 -YSVIPSSTKRENLASNLLAQDLQLDAEDMAAIAALDRN 253 (267)
T ss_pred -CEeecCCCCHHHHHHHHhhcCCCcCHHHHHHHhhhccC
Confidence 56999999999999999999999999999999998743
No 9
>PLN02587 L-galactose dehydrogenase
Probab=99.72 E-value=3.6e-17 Score=130.27 Aligned_cols=108 Identities=19% Similarity=0.243 Sum_probs=91.0
Q ss_pred ccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCC
Q 041500 11 SKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGN 89 (157)
Q Consensus 11 ~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~ 89 (157)
.+++++|+++||++++ +||++|.++....+ .+.. ..+.....++.+.++|+++|+|++|+||+|++++|.
T Consensus 188 ~~ll~~~~~~gi~v~a~spl~~G~L~~~~~~--------~~~~-~~~~~~~~~~~l~~~a~~~~~s~aq~al~~~l~~~~ 258 (314)
T PLN02587 188 EDLLPYLKSKGVGVISASPLAMGLLTENGPP--------EWHP-APPELKSACAAAATHCKEKGKNISKLALQYSLSNKD 258 (314)
T ss_pred HHHHHHHHHcCceEEEechhhccccCCCCCC--------CCCC-CCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCC
Confidence 4899999999999999 99999976643211 1111 124456677889999999999999999999999999
Q ss_pred CeEeecCCCCHHHHHHHHhccC----CCCCHHHHHHHHhhhc
Q 041500 90 DVCPIPGTTKIENLNQNIKALS----VKLSPEEMAELESIAS 127 (157)
Q Consensus 90 v~~~I~G~~~~~ql~en~~a~~----~~Ls~e~~~~l~~~~~ 127 (157)
|+++|+|+++++|+++|+++.. ++|+++++++|+++..
T Consensus 259 v~~~i~G~~~~~~l~~nl~a~~~~~~~~l~~~~~~~l~~~~~ 300 (314)
T PLN02587 259 ISTTLVGMNSVQQVEENVAAATELETSGIDEELLSEVEAILA 300 (314)
T ss_pred CeeEEecCCCHHHHHHHHHHHhhcccCCCCHHHHHHHHHhhc
Confidence 9999999999999999999976 3799999999999874
No 10
>KOG1577 consensus Aldo/keto reductase family proteins [General function prediction only]
Probab=99.70 E-value=4.6e-17 Score=127.49 Aligned_cols=96 Identities=29% Similarity=0.422 Sum_probs=83.4
Q ss_pred cccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCC
Q 041500 10 SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQG 88 (157)
Q Consensus 10 ~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~ 88 (157)
+.+++++|+++||.+.+ |||+++.... .+-.-+.+.+||++||+|+||++|+|.++++
T Consensus 190 Q~~L~~fCk~~~I~v~AYSpLg~~~~~~---------------------~ll~~~~l~~iA~K~~kt~aQIlLrw~~q~g 248 (300)
T KOG1577|consen 190 QKKLVEFCKSKGIVVTAYSPLGSPGRGS---------------------DLLEDPVLKEIAKKYNKTPAQILLRWALQRG 248 (300)
T ss_pred hHHHHHHHhhCCcEEEEecCCCCCCCcc---------------------ccccCHHHHHHHHHhCCCHHHHHHHHHHhCC
Confidence 56699999999999999 9999995300 0111138899999999999999999999999
Q ss_pred CCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhcc
Q 041500 89 NDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASA 128 (157)
Q Consensus 89 ~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~ 128 (157)
++|||.++++++++||++.+++.||+||++.|+.....
T Consensus 249 --~~vipKS~~~~Ri~eN~~vfdf~Lt~ed~~~i~~~~~~ 286 (300)
T KOG1577|consen 249 --VSVIPKSSNPERIKENFKVFDFELTEEDMKKLDSLNSN 286 (300)
T ss_pred --cEEEeccCCHHHHHHHHhhccccCCHHHHHHHhhcccc
Confidence 99999999999999999999999999999999977643
No 11
>PRK11565 dkgA 2,5-diketo-D-gluconate reductase A; Provisional
Probab=99.70 E-value=1e-16 Score=125.68 Aligned_cols=93 Identities=19% Similarity=0.353 Sum_probs=80.8
Q ss_pred cccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCC
Q 041500 10 SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQG 88 (157)
Q Consensus 10 ~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~ 88 (157)
+.+++++|+++||++++ +||++|.. ..+. .+.|.++|+++|+|++|+||+|+++++
T Consensus 169 ~~~~~~~~~~~~i~~~a~spl~~G~~-------------~~~~----------~~~l~~ia~~~g~s~aq~aL~w~l~~~ 225 (275)
T PRK11565 169 QRQLHAWNATHKIQTESWSPLAQGGK-------------GVFD----------QKVIRDLADKYGKTPAQIVIRWHLDSG 225 (275)
T ss_pred hHHHHHHHHHCCCEEEEEccCCCCCc-------------cccc----------CHHHHHHHHHhCCCHHHHHHHHHHcCC
Confidence 35799999999999999 99998721 0111 137899999999999999999999997
Q ss_pred CCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhc
Q 041500 89 NDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIAS 127 (157)
Q Consensus 89 ~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~ 127 (157)
..+|||+++++|+++|+++.++.|++++++.|+.+..
T Consensus 226 --~~~I~g~~~~~~i~~n~~a~~~~Ls~~~~~~i~~~~~ 262 (275)
T PRK11565 226 --LVVIPKSVTPSRIAENFDVFDFRLDKDELGEIAKLDQ 262 (275)
T ss_pred --CEeeCCCCCHHHHHHHHhccCCCcCHHHHHHHHhhcc
Confidence 5699999999999999999999999999999999874
No 12
>PRK10376 putative oxidoreductase; Provisional
Probab=99.68 E-value=2e-16 Score=124.79 Aligned_cols=93 Identities=30% Similarity=0.535 Sum_probs=81.5
Q ss_pred cccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCC
Q 041500 10 SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQG 88 (157)
Q Consensus 10 ~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~ 88 (157)
..+++++|+++||++++ +||+.+. + + ..+.+.++|+++|++++|+||+|+++++
T Consensus 195 ~~~~~~~~~~~gi~v~a~~pL~g~~--------------~-~----------~~~~l~~ia~~~~~t~aq~al~w~l~~~ 249 (290)
T PRK10376 195 DDALIDALARDGIAYVPFFPLGGFT--------------P-L----------QSSTLSDVAASLGATPMQVALAWLLQRS 249 (290)
T ss_pred hHHHHHHHHHcCCEEEEeecCCCCC--------------h-h----------hhHHHHHHHHHhCCCHHHHHHHHHHhCC
Confidence 46799999999999999 9997331 0 0 1247899999999999999999999987
Q ss_pred CCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhc
Q 041500 89 NDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIAS 127 (157)
Q Consensus 89 ~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~ 127 (157)
.++++|+|+++++|+++|+++.++.|++++++.|+++.+
T Consensus 250 ~~~~~i~G~~~~~~l~en~~a~~~~L~~e~~~~l~~~~~ 288 (290)
T PRK10376 250 PNILLIPGTSSVAHLRENLAAAELVLSEEVLAELDGIAR 288 (290)
T ss_pred CCeeEeeCCCCHHHHHHHHhhccCCCCHHHHHHHHHHHh
Confidence 778899999999999999999999999999999998864
No 13
>cd06660 Aldo_ket_red Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial applications. Members have very distinct functions and include the prokaryotic 2,5-diketo-D-gluconic acid reductases and beta-keto ester reductases, the eukaryotic aldose reductases, aldehyde reductases, hydroxysteroid dehydrogenases, steroid 5beta-reductases, potassium channel beta-subunits and aflatoxin aldehyde reductases, among others.
Probab=99.67 E-value=3.7e-16 Score=122.32 Aligned_cols=111 Identities=30% Similarity=0.428 Sum_probs=89.9
Q ss_pred CccccccccccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHH
Q 041500 2 LQKFSCNDSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLA 80 (157)
Q Consensus 2 ~~~~~~~~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqla 80 (157)
||.+..+...+++++|+++||++++ +||++|.+.....+.. .+. .......+..++++++++++|+|
T Consensus 173 ~n~~~~~~~~~~~~~~~~~gi~v~~~~~l~~g~l~~~~~~~~------~~~------~~~~~~~~~~~~~~~~~s~~q~a 240 (285)
T cd06660 173 YNLLDRQAEEELLPYCREHGIGVIAYSPLAGGLLTGKYLPGA------PPP------EGDLLEALKEIAEKHGVTPAQVA 240 (285)
T ss_pred cCcccCchHHHHHHHHHHcCcEEEEeccccCceecCCCCCCC------CCC------hhhHHHHHHHHHHHhCCCHHHHH
Confidence 3444444445799999999999999 9999997543322110 000 01145689999999999999999
Q ss_pred HHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHh
Q 041500 81 LAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELES 124 (157)
Q Consensus 81 L~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~ 124 (157)
|+|++++|.+.++|+|+++++|+++|+++..++|++++++.|+.
T Consensus 241 l~~~l~~p~~~~~i~g~~~~~~l~~n~~~~~~~L~~~~~~~l~~ 284 (285)
T cd06660 241 LRWLLQQPGVTSVIPGASSPERLEENLAALDFELSDEDLAALDA 284 (285)
T ss_pred HHHHhcCCCCeEEEeCCCCHHHHHHHHhhccCCCCHHHHHHHhh
Confidence 99999999999999999999999999999999999999999985
No 14
>PRK14863 bifunctional regulator KidO; Provisional
Probab=99.65 E-value=5.2e-16 Score=122.68 Aligned_cols=113 Identities=12% Similarity=0.086 Sum_probs=88.7
Q ss_pred Cccccccc-cccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHH
Q 041500 2 LQKFSCND-SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQL 79 (157)
Q Consensus 2 ~~~~~~~~-~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aql 79 (157)
||.+.... ..+++++|+++||++++ +||++|.+.... . +. + .........+..+.+++++++++++|+
T Consensus 165 ~n~l~~~~~~~~~l~~~~~~gi~v~a~spl~~G~L~~~~--~---~~-~----~~~~~~~~~~~~~~~~~~~~~~s~aql 234 (292)
T PRK14863 165 ASLLDQRLLADGSLQRIAGMGVEVHLRSIFLNGLLFLPP--D---RV-P----AQLKGASGRLSRVRRMIAEGRSDPLQA 234 (292)
T ss_pred CCcccccccccchHHHHHhCCCEEEEechhhCccccCCc--c---cC-c----cchhhhhHHHHHHHHHHHHcCCCHHHH
Confidence 34454443 24799999999999999 999999864321 0 00 0 011223355667888888999999999
Q ss_pred HHHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHh
Q 041500 80 ALAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELES 124 (157)
Q Consensus 80 aL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~ 124 (157)
||+|++++|.|+++|+|+++++|+++|+++.+..+++..+++|..
T Consensus 235 alaw~l~~p~v~~~I~G~~~~~ql~~n~~a~~~~~~~~~~~~l~~ 279 (292)
T PRK14863 235 ALGFALSRPEGSAVLVGVNSAAELSAVVAAASSPPPDLDWDDMAI 279 (292)
T ss_pred HHHHHHhCCCCCeEEEecCCHHHHHHHHHHHhcCCCccchhhccC
Confidence 999999999999999999999999999999999999988888754
No 15
>COG4989 Predicted oxidoreductase [General function prediction only]
Probab=99.57 E-value=1.6e-14 Score=110.21 Aligned_cols=104 Identities=24% Similarity=0.310 Sum_probs=90.7
Q ss_pred cccccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhC-CCHHHHHHHHHH
Q 041500 8 NDSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKG-CTPSQLALAWVH 85 (157)
Q Consensus 8 ~~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g-~s~aqlaL~w~l 85 (157)
..+.+.+++|+.+.|..++ |||+.|. .|.+ ..+.+++.+.|.+||+++| +|..++|++|++
T Consensus 189 ~~~DGtLd~~q~~~v~pmaWSpl~gG~---------------~F~g--~~~~q~l~~~l~~ia~e~ga~s~~~VaiAWll 251 (298)
T COG4989 189 MLLDGTLDYCQQLRVRPMAWSPLGGGG---------------LFLG--DDKFQRLRKVLDRIAEEYGAVSITAVAIAWLL 251 (298)
T ss_pred ccccchHHHHHHcCCCcccccccCCCc---------------cccC--CcchHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence 3457899999999999999 9999993 1222 2344556679999999999 799999999999
Q ss_pred hCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhcc
Q 041500 86 HQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASA 128 (157)
Q Consensus 86 ~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~ 128 (157)
.||.-..||+|+.+++++++.++|.++.||.++|-+|...+..
T Consensus 252 R~Pa~~~PiiGt~~~eRi~~a~~Al~~~LtRqqWf~Iy~Aa~G 294 (298)
T COG4989 252 RHPAKPQPIIGTGNLERIRAAIKALSLTLTRQQWFEIYTAAIG 294 (298)
T ss_pred hCcCcccceecCCCHHHHHHHHHHhhccccHHHHHHHHHHhcc
Confidence 9999999999999999999999999999999999999988743
No 16
>COG1453 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]
Probab=99.31 E-value=1e-11 Score=99.31 Aligned_cols=105 Identities=21% Similarity=0.242 Sum_probs=86.2
Q ss_pred cccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhC--CCHHHHHHHHHHhCC
Q 041500 12 KLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKG--CTPSQLALAWVHHQG 88 (157)
Q Consensus 12 ~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g--~s~aqlaL~w~l~~~ 88 (157)
+.+++|.++|++|+. +|+..|.+.... | +++.+|+++++ .||+.+|++|+++||
T Consensus 187 ~~l~~A~~~~~gI~IMeP~~gG~l~~~v-P----------------------~~~~~l~~~~~~~~sP~~wa~R~~~shp 243 (391)
T COG1453 187 EGLKYAASKGLGIFIMEPLDGGGLLYNV-P----------------------EKLEELCRPASPKRSPAEWALRYLLSHP 243 (391)
T ss_pred HHHHHHHhCCCcEEEEeeCCCCCcccCC-C----------------------HHHHHHHHhcCCCCCcHHHHHHHHhcCC
Confidence 789999999999999 999999644311 0 28899999877 679999999999999
Q ss_pred CCeEeecCCCCHHHHHHHHhccCC---CCCHHHHHHHHhhhcc------CCcCCCCCCCC
Q 041500 89 NDVCPIPGTTKIENLNQNIKALSV---KLSPEEMAELESIASA------DAVRGHRYGGV 139 (157)
Q Consensus 89 ~v~~~I~G~~~~~ql~en~~a~~~---~Ls~e~~~~l~~~~~~------~~~~~~~~~~~ 139 (157)
.|.+++.|+++++|++||++.++- .||+++...|.++.+. -.+++++||=+
T Consensus 244 ~V~~vlsGm~~~~~l~enLk~~~~~~p~lte~e~~il~~v~~~~~~~~~v~Ct~C~yC~P 303 (391)
T COG1453 244 EVTTVLSGMNTPEQLEENLKIASELEPSLTEEELQILEKVEEIYRESLKVPCTGCRYCLP 303 (391)
T ss_pred CeEEEecCCCCHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHhcCCCccccccCc
Confidence 999999999999999999998764 3999988777666422 24777777754
No 17
>KOG1576 consensus Predicted oxidoreductase [Energy production and conversion]
Probab=99.30 E-value=1e-11 Score=95.78 Aligned_cols=130 Identities=14% Similarity=0.087 Sum_probs=99.7
Q ss_pred cccccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHh
Q 041500 8 NDSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHH 86 (157)
Q Consensus 8 ~~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~ 86 (157)
+..-..+++.++.|++|++ ++|+.|+++....++ |. +-.++.+++.++-.++|++.|+.++.+|+.|.++
T Consensus 210 ~tLl~~~~~~~sk~vgVi~AsalsmgLLt~~gp~~--------wH-PaS~Elk~~a~~aa~~Cq~rnv~l~kLA~~Yam~ 280 (342)
T KOG1576|consen 210 NTLLRYLKRLKSKGVGVINASALSMGLLTNQGPPP--------WH-PASDELKEAAKAAAEYCQSRNVELGKLAMYYAMS 280 (342)
T ss_pred HHHHHHHHHHHhcCceEEehhhHHHHHhhcCCCCC--------CC-CCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHc
Confidence 4455677888999999999 999999977654433 22 2367888899999999999999999999999999
Q ss_pred CCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhccCCcCCCCCCCCCCCccCCCCCCC
Q 041500 87 QGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASADAVRGHRYGGVTPTYEDSETPPV 151 (157)
Q Consensus 87 ~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (157)
.++++++++|..+.++++.|+++....||..+-++...+.+.. .... ....|.+++.++|
T Consensus 281 ~~~~~~~lvGm~s~~~l~~nLdan~~~ls~~~~Qevl~~~r~~--~~~~---kn~~W~g~~~~~y 340 (342)
T KOG1576|consen 281 LPGVSTVLVGMSSRQLLRINLDANFDRLSSKHEQEVLRILREI--LKET---KNEEWEGGILHPY 340 (342)
T ss_pred cCCcceEEecCchHHHHHHHHHhhhccccchhHHHHHHHHHHH--hhhh---ccCCCCCCCCccc
Confidence 9999999999999999999999877778773333333333210 0011 2357988887765
No 18
>PF11242 DUF2774: Protein of unknown function (DUF2774); InterPro: IPR021404 This entry is represented by Bacteriophage T4, Gp24.3; it is a family of uncharacterised viral proteins.
Probab=79.83 E-value=3 Score=25.28 Aligned_cols=23 Identities=39% Similarity=0.495 Sum_probs=20.6
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHh
Q 041500 64 RVNEIAVKKGCTPSQLALAWVHH 86 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w~l~ 86 (157)
.+.+||+++|.++.++|..|+.-
T Consensus 15 ~FveIAr~~~i~a~e~a~~w~~V 37 (63)
T PF11242_consen 15 SFVEIARKIGITAKEVAKAWAEV 37 (63)
T ss_pred cHHHHHHHhCCCHHHHHHHHHHH
Confidence 56789999999999999999864
No 19
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=74.32 E-value=4.9 Score=22.78 Aligned_cols=41 Identities=17% Similarity=0.247 Sum_probs=28.2
Q ss_pred HHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccC
Q 041500 65 VNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALS 111 (157)
Q Consensus 65 l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~ 111 (157)
|++||+..|+|.+.+... ++.+ .-+...+.+++.+.++.+.
T Consensus 2 i~dIA~~agvS~~TVSr~--ln~~----~~vs~~tr~rI~~~a~~lg 42 (46)
T PF00356_consen 2 IKDIAREAGVSKSTVSRV--LNGP----PRVSEETRERILEAAEELG 42 (46)
T ss_dssp HHHHHHHHTSSHHHHHHH--HTTC----SSSTHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHCcCHHHHHHH--HhCC----CCCCHHHHHHHHHHHHHHC
Confidence 678999999999999876 5544 2344556666666555443
No 20
>PF14502 HTH_41: Helix-turn-helix domain
Probab=72.66 E-value=4.4 Score=23.34 Aligned_cols=30 Identities=23% Similarity=0.292 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhCCC--HHHHHHHHHHhCCCCe
Q 041500 62 FERVNEIAVKKGCT--PSQLALAWVHHQGNDV 91 (157)
Q Consensus 62 ~~~l~~ia~~~g~s--~aqlaL~w~l~~~~v~ 91 (157)
+..+.+++++++++ ..|-||+++-..+.|.
T Consensus 6 i~tI~e~~~~~~vs~GtiQ~Alk~Le~~gaI~ 37 (48)
T PF14502_consen 6 IPTISEYSEKFGVSRGTIQNALKFLEENGAIK 37 (48)
T ss_pred cCCHHHHHHHhCcchhHHHHHHHHHHHCCcEE
Confidence 34788999999988 5999999999988543
No 21
>PRK00979 tetrahydromethanopterin S-methyltransferase subunit H; Provisional
Probab=66.63 E-value=6.5 Score=31.63 Aligned_cols=56 Identities=13% Similarity=0.111 Sum_probs=41.9
Q ss_pred CCccccccccccccccchhcCCe-EecccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHH--------HHHHHHH
Q 041500 1 MLQKFSCNDSSKLLHPCGSFHFC-YIALPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFER--------VNEIAVK 71 (157)
Q Consensus 1 ~~~~~~~~~~~~ll~~~~~~gi~-v~~~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~--------l~~ia~~ 71 (157)
|||+++-...++.++.++++|+. +++-++..+.. ..+..++.+++ +.++|++
T Consensus 126 IiNSIn~e~~~eel~llk~yg~aavIvLa~d~~~p-------------------t~e~Rl~i~~~~~~~~~~gll~~a~~ 186 (308)
T PRK00979 126 IYNSINPSIEEEEIEALKESDIKAAIVLAFDPMDP-------------------SVEGRLKMLEEGGKGQDKGMLPLAEE 186 (308)
T ss_pred EEEeccCCCCHHHHHHHHHhCCceEEEEEcCCCCC-------------------CHHHHHHHHHhccccchHHHHHHHHH
Confidence 57889988777889999999977 44366666620 25666777777 8889999
Q ss_pred hCCC
Q 041500 72 KGCT 75 (157)
Q Consensus 72 ~g~s 75 (157)
+|++
T Consensus 187 ~GI~ 190 (308)
T PRK00979 187 AGIE 190 (308)
T ss_pred cCCC
Confidence 9983
No 22
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=63.81 E-value=15 Score=19.42 Aligned_cols=23 Identities=35% Similarity=0.562 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHhCCCHHHHHHH
Q 041500 60 KLFERVNEIAVKKGCTPSQLALA 82 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~aqlaL~ 82 (157)
+..+.|.++|++.|+|.+++.-.
T Consensus 9 ~~~~~l~~~a~~~g~s~s~~ir~ 31 (39)
T PF01402_consen 9 ELYERLDELAKELGRSRSELIRE 31 (39)
T ss_dssp HHHHHHHHHHHHHTSSHHHHHHH
T ss_pred HHHHHHHHHHHHHCcCHHHHHHH
Confidence 45678999999999998776543
No 23
>PF11020 DUF2610: Domain of unknown function (DUF2610); InterPro: IPR021277 This family is conserved in Proteobacteria. One member is annotated as being elongation factor P but this could not be confirmed.
Probab=63.67 E-value=21 Score=22.80 Aligned_cols=29 Identities=10% Similarity=0.108 Sum_probs=24.3
Q ss_pred hHhhHHHHHHHHHHHHHhCCCHHHHHHHH
Q 041500 55 LEHNKKLFERVNEIAVKKGCTPSQLALAW 83 (157)
Q Consensus 55 ~~~~~~~~~~l~~ia~~~g~s~aqlaL~w 83 (157)
-++..+.+.+|.+||++.|++..+++.-.
T Consensus 47 P~~V~~sl~kL~~La~~N~v~feeLc~YA 75 (82)
T PF11020_consen 47 PEKVMDSLSKLYKLAKENNVSFEELCVYA 75 (82)
T ss_pred CHHHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 35677888999999999999999987543
No 24
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=62.39 E-value=23 Score=21.37 Aligned_cols=17 Identities=29% Similarity=0.503 Sum_probs=15.3
Q ss_pred HHHHHHHHhCCCHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLA 80 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqla 80 (157)
.+.+||+++|++..+|.
T Consensus 24 ~lkdIA~~Lgvs~~tIr 40 (60)
T PF10668_consen 24 KLKDIAEKLGVSESTIR 40 (60)
T ss_pred cHHHHHHHHCCCHHHHH
Confidence 68899999999998886
No 25
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=57.10 E-value=12 Score=33.03 Aligned_cols=82 Identities=11% Similarity=0.199 Sum_probs=51.8
Q ss_pred ccccccccccccchhcCCeEec-c---cccCCccCCCCCCCCccC--CCCCCCccchHhhHHHHHHH-HHHHHHhCCCH-
Q 041500 5 FSCNDSSKLLHPCGSFHFCYIA-L---PMHVNVKSIDKSKESLFL--HQPRFQPENLEHNKKLFERV-NEIAVKKGCTP- 76 (157)
Q Consensus 5 ~~~~~~~~ll~~~~~~gi~v~~-~---pl~~G~~~~~~~~~~~~r--~~~~~~~~~~~~~~~~~~~l-~~ia~~~g~s~- 76 (157)
++.++...+.++|++|+|.++. + ||..|+-. .++ --+-|-+......++..+.+ +++..+||++.
T Consensus 52 I~~~d~~ala~f~~e~~I~lVvvGPE~PL~~Gl~~-------~l~~~gi~~FGPs~~aAqlE~sK~fsK~fm~r~~IPTA 124 (788)
T KOG0237|consen 52 ISVADFEALASFCKEHNINLVVVGPELPLVAGLAD-------VLRSAGIPCFGPSKQAAQLEASKNFSKDFMHRHNIPTA 124 (788)
T ss_pred cChhhHHHHHHHHHHcceeEEEECCchhhhhhhhh-------hhhccCcceeCchHHHHHhhhhHHHHHHHHHhcCCCcc
Confidence 3445677889999999999887 6 57777411 011 11223333334444544444 67888899865
Q ss_pred -------HHHHHHHHHhCCCCeEe
Q 041500 77 -------SQLALAWVHHQGNDVCP 93 (157)
Q Consensus 77 -------aqlaL~w~l~~~~v~~~ 93 (157)
.+-|..|+.+++.-..+
T Consensus 125 ~y~~ft~~e~a~sfi~~~~~~~~V 148 (788)
T KOG0237|consen 125 KYKTFTDPEEAKSFIQSATDKALV 148 (788)
T ss_pred eeeeeCCHHHHHHHHHhCCCcceE
Confidence 46789999998843433
No 26
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=53.57 E-value=3.7 Score=28.77 Aligned_cols=53 Identities=9% Similarity=0.118 Sum_probs=32.6
Q ss_pred ccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCH
Q 041500 11 SKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTP 76 (157)
Q Consensus 11 ~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~ 76 (157)
.-+|+.|++.|+-++- .|-.+|... .|.+-..+...+..++++.+|+++|...
T Consensus 39 ~l~L~~~k~~g~~~lfVi~PvNg~wy-------------dytG~~~~~r~~~y~kI~~~~~~~gf~v 92 (130)
T PF04914_consen 39 QLLLDVCKELGIDVLFVIQPVNGKWY-------------DYTGLSKEMRQEYYKKIKYQLKSQGFNV 92 (130)
T ss_dssp HHHHHHHHHTT-EEEEEE----HHHH-------------HHTT--HHHHHHHHHHHHHHHHTTT--E
T ss_pred HHHHHHHHHcCCceEEEecCCcHHHH-------------HHhCCCHHHHHHHHHHHHHHHHHCCCEE
Confidence 4478999999999998 777777411 1222235677788889999999998743
No 27
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=49.53 E-value=31 Score=27.51 Aligned_cols=44 Identities=23% Similarity=0.362 Sum_probs=36.5
Q ss_pred HHHHHHHHhCC------CHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHh
Q 041500 64 RVNEIAVKKGC------TPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIK 108 (157)
Q Consensus 64 ~l~~ia~~~g~------s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~ 108 (157)
+|.++|++.|. ++.++=..|+.... ...+-.|+++|+.+-+++-
T Consensus 229 rL~eiA~~~g~~aylId~~~ei~~~w~~~~~-~VGvTAGAStPd~lV~~Vi 278 (294)
T COG0761 229 RLAEIAKRHGKPAYLIDDAEEIDPEWLKGVK-TVGVTAGASTPDWLVQEVI 278 (294)
T ss_pred HHHHHHHHhCCCeEEeCChHhCCHHHhcCcc-EEEEecCCCCCHHHHHHHH
Confidence 89999999887 46888899998844 4678899999999987663
No 28
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=49.30 E-value=15 Score=28.68 Aligned_cols=63 Identities=14% Similarity=0.217 Sum_probs=41.0
Q ss_pred CCccccccc--cccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHH
Q 041500 1 MLQKFSCND--SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPS 77 (157)
Q Consensus 1 ~~~~~~~~~--~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~a 77 (157)
|+|..+... ...+++.++++|..++. --...|. +...+...+.++.+.+.|.++|+++-
T Consensus 94 iINsIs~~~~~~~~~~~l~~~~g~~vv~m~~~~~g~------------------P~t~~~~~~~l~~~v~~a~~~GI~~~ 155 (261)
T PRK07535 94 LINSVSAEGEKLEVVLPLVKKYNAPVVALTMDDTGI------------------PKDAEDRLAVAKELVEKADEYGIPPE 155 (261)
T ss_pred EEEeCCCCCccCHHHHHHHHHhCCCEEEEecCCCCC------------------CCCHHHHHHHHHHHHHHHHHcCCCHh
Confidence 467777743 56788889999988887 3323441 11134456667777888888888766
Q ss_pred HHHH
Q 041500 78 QLAL 81 (157)
Q Consensus 78 qlaL 81 (157)
++.+
T Consensus 156 ~Iil 159 (261)
T PRK07535 156 DIYI 159 (261)
T ss_pred HEEE
Confidence 5543
No 29
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=47.92 E-value=33 Score=27.50 Aligned_cols=74 Identities=16% Similarity=0.192 Sum_probs=50.9
Q ss_pred ccccccccccccchhcCCeEecccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCC------CHHH
Q 041500 5 FSCNDSSKLLHPCGSFHFCYIALPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGC------TPSQ 78 (157)
Q Consensus 5 ~~~~~~~~ll~~~~~~gi~v~~~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~------s~aq 78 (157)
+|.+-|..+.+++++.++.++.+...+.. -+.|.++|+++|. +..+
T Consensus 196 aT~~RQ~a~~~La~~vD~miVVGg~~SsN----------------------------T~kL~~i~~~~~~~t~~Ie~~~e 247 (298)
T PRK01045 196 ATQNRQEAVKELAPQADLVIVVGSKNSSN----------------------------SNRLREVAEEAGAPAYLIDDASE 247 (298)
T ss_pred hhHHHHHHHHHHHhhCCEEEEECCCCCcc----------------------------HHHHHHHHHHHCCCEEEECChHH
Confidence 34455566677777777666663222221 1288899998874 4789
Q ss_pred HHHHHHHhCCCCeEeecCCCCHHHHHHHH
Q 041500 79 LALAWVHHQGNDVCPIPGTTKIENLNQNI 107 (157)
Q Consensus 79 laL~w~l~~~~v~~~I~G~~~~~ql~en~ 107 (157)
+-..|+.... .+.+..|+++|+.+-+.+
T Consensus 248 l~~~~l~~~~-~VGitaGASTP~~li~eV 275 (298)
T PRK01045 248 IDPEWFKGVK-TVGVTAGASAPEWLVQEV 275 (298)
T ss_pred CcHHHhcCCC-EEEEEecCCCCHHHHHHH
Confidence 9999997654 467889999999887554
No 30
>KOG0693 consensus Myo-inositol-1-phosphate synthase [Lipid transport and metabolism]
Probab=47.90 E-value=50 Score=27.45 Aligned_cols=90 Identities=19% Similarity=0.266 Sum_probs=68.4
Q ss_pred CCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCC-CHHHHHHHHhccCCCCCHHHHHHHHhhhcc
Q 041500 50 FQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTT-KIENLNQNIKALSVKLSPEEMAELESIASA 128 (157)
Q Consensus 50 ~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~-~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~ 128 (157)
..+...++...+.+.++++-++.++.-. ..-|......-+-++||.. +.+.|-+.++.-+.++++..+..+.++.
T Consensus 198 I~g~~keqle~Ir~Dir~Fke~~~ldkV--iVLWTANTERy~~V~~GlNdT~enl~~si~~~~~EisPStifA~Asil-- 273 (512)
T KOG0693|consen 198 IKGTKKEQLEQIRKDIREFKEENKLDKV--IVLWTANTERYSNVIPGLNDTAENLLESIEKDESEISPSTIFAIASIL-- 273 (512)
T ss_pred ccCchHHHHHHHHHHHHHHHHhcCCceE--EEEEecCcceeeccccccchHHHHHHHHHhcCccccChHHHHHHHHHH--
Confidence 3344456666777888888888776643 3357788777788899976 7888889998888899999999999998
Q ss_pred CCcCCCCCCCCCCCccCC
Q 041500 129 DAVRGHRYGGVTPTYEDS 146 (157)
Q Consensus 129 ~~~~~~~~~~~~~~~~~~ 146 (157)
.+..|.+.+|+=+++
T Consensus 274 ---Eg~~yiNGSPQNTfV 288 (512)
T KOG0693|consen 274 ---EGCPYINGSPQNTFV 288 (512)
T ss_pred ---cCCCcccCCCccccc
Confidence 457888877766543
No 31
>PF08418 Pol_alpha_B_N: DNA polymerase alpha subunit B N-terminal; InterPro: IPR013627 This is the eukaryotic DNA polymerase alpha subunit B N-terminal domain which is involved in complex formation []. ; PDB: 4E2I_9 2KEB_A 3FLO_G.
Probab=47.54 E-value=21 Score=27.42 Aligned_cols=50 Identities=10% Similarity=0.222 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHHHhCCCHHHHHHHH---HHhCCCCeEeecCCCCHHHHHHHHh
Q 041500 58 NKKLFERVNEIAVKKGCTPSQLALAW---VHHQGNDVCPIPGTTKIENLNQNIK 108 (157)
Q Consensus 58 ~~~~~~~l~~ia~~~g~s~aqlaL~w---~l~~~~v~~~I~G~~~~~ql~en~~ 108 (157)
...++.++..||+-|++++-+++..| ++.+..-. .-+...+.+.+++.++
T Consensus 8 ~~~vl~kl~slc~~~~ls~edL~~kWeaf~~~~~~~~-~~l~~~~L~~F~~~lq 60 (253)
T PF08418_consen 8 DPDVLEKLQSLCRLYNLSAEDLFYKWEAFSLNMQLDD-TKLTLDNLDQFKQYLQ 60 (253)
T ss_dssp -HHHHHHHHTHHHHST--HHHHHHHHTTHHHHTT-SC-----TTTTTGGGTTTS
T ss_pred CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhcCCCc-CcCCHHHHHHHHHHHH
Confidence 45778899999999999999999988 34444221 2355666666665554
No 32
>PF13518 HTH_28: Helix-turn-helix domain
Probab=47.37 E-value=29 Score=19.23 Aligned_cols=22 Identities=32% Similarity=0.567 Sum_probs=16.6
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHh
Q 041500 64 RVNEIAVKKGCTPSQLALAWVHH 86 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w~l~ 86 (157)
.+.++|+++|++..++ ..|+..
T Consensus 14 s~~~~a~~~gis~~tv-~~w~~~ 35 (52)
T PF13518_consen 14 SVREIAREFGISRSTV-YRWIKR 35 (52)
T ss_pred CHHHHHHHHCCCHhHH-HHHHHH
Confidence 5677888999988666 777754
No 33
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=46.77 E-value=33 Score=27.23 Aligned_cols=74 Identities=9% Similarity=0.050 Sum_probs=50.6
Q ss_pred ccccccccccccchhcCCeEecccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCC------CHHH
Q 041500 5 FSCNDSSKLLHPCGSFHFCYIALPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGC------TPSQ 78 (157)
Q Consensus 5 ~~~~~~~~ll~~~~~~gi~v~~~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~------s~aq 78 (157)
+|.+-|..+.+++++.++-++.+...+.. -+.|.++|++.|. ++.+
T Consensus 195 aT~~RQ~a~~~La~~vD~miVVGg~~SsN----------------------------T~rL~eia~~~~~~t~~Ie~~~e 246 (281)
T PRK12360 195 ATKKRQESAKELSKEVDVMIVIGGKHSSN----------------------------TQKLVKICEKNCPNTFHIETADE 246 (281)
T ss_pred hhhhHHHHHHHHHHhCCEEEEecCCCCcc----------------------------HHHHHHHHHHHCCCEEEECChHH
Confidence 34455566667777777666652222220 0288899998875 4788
Q ss_pred HHHHHHHhCCCCeEeecCCCCHHHHHHHH
Q 041500 79 LALAWVHHQGNDVCPIPGTTKIENLNQNI 107 (157)
Q Consensus 79 laL~w~l~~~~v~~~I~G~~~~~ql~en~ 107 (157)
+-..|+.... .+.+..|+++|+.+-+.+
T Consensus 247 l~~~~~~~~~-~VGitaGASTP~~li~eV 274 (281)
T PRK12360 247 LDLEMLKDYK-IIGITAGASTPDWIIEEV 274 (281)
T ss_pred CCHHHhCCCC-EEEEEccCCCCHHHHHHH
Confidence 8889998764 467889999999886654
No 34
>PF13700 DUF4158: Domain of unknown function (DUF4158)
Probab=45.40 E-value=80 Score=22.54 Aligned_cols=45 Identities=20% Similarity=0.325 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHhC--CCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHH
Q 041500 59 KKLFERVNEIAVKKG--CTPSQLALAWVHHQGNDVCPIPGTTKIENLNQN 106 (157)
Q Consensus 59 ~~~~~~l~~ia~~~g--~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en 106 (157)
....+.+.+.|...+ ..+...++.|+..+. .++||.++.+++-..
T Consensus 118 ~~L~~~l~~~a~~~~~~~~l~~~~~~~L~~~r---I~lP~~~~L~rli~~ 164 (166)
T PF13700_consen 118 AELEEWLREAARTTDDPDDLFNALIEWLRQRR---IELPGYSTLERLISS 164 (166)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCC---eeCCCHHHHHHHHHH
Confidence 344455666665544 347999999999998 689999998887643
No 35
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=45.30 E-value=43 Score=18.58 Aligned_cols=21 Identities=33% Similarity=0.667 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHhCCCHHHH
Q 041500 59 KKLFERVNEIAVKKGCTPSQL 79 (157)
Q Consensus 59 ~~~~~~l~~ia~~~g~s~aql 79 (157)
.+..+.|.++|++.|++.+.+
T Consensus 11 ~el~~~L~~ls~~t~i~~S~L 31 (44)
T PF12651_consen 11 KELYEKLKELSEETGIPKSKL 31 (44)
T ss_pred HHHHHHHHHHHHHHCCCHHHH
Confidence 356679999999999997665
No 36
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=42.53 E-value=92 Score=22.43 Aligned_cols=63 Identities=24% Similarity=0.266 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHhCCCC--eEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhh
Q 041500 60 KLFERVNEIAVKKGCTPSQLALAWVHHQGND--VCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIA 126 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v--~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~ 126 (157)
++.+.+.++|++ |.+++|+-+. +.++-+| +-.|.|..=.+-|++|= +..+++++.+..+..+.
T Consensus 32 eve~~I~~lakk-G~~pSqIG~~-LRD~~gip~Vk~vtG~ki~~iLk~~g--l~p~iPEDL~~L~~ri~ 96 (151)
T PRK08561 32 EIEELVVELAKQ-GYSPSMIGII-LRDQYGIPDVKLITGKKITEILEENG--LAPEIPEDLRNLIKKAV 96 (151)
T ss_pred HHHHHHHHHHHC-CCCHHHhhhh-HhhccCCCceeeeccchHHHHHHHcC--CCCCCcHHHHHHHHHHH
Confidence 334456677755 9999999987 4444433 22334443333333332 22367766665555443
No 37
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=42.46 E-value=15 Score=28.26 Aligned_cols=52 Identities=10% Similarity=-0.029 Sum_probs=34.9
Q ss_pred ccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCH
Q 041500 11 SKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTP 76 (157)
Q Consensus 11 ~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~ 76 (157)
...+++|+..|...+. .|...|.. . -....++...+.++.+.++|+++|+.+
T Consensus 93 ~~~i~~a~~lGa~~i~~~~~~~~~~-------------~-~~~~~~~~~~~~l~~l~~~a~~~gv~l 145 (275)
T PRK09856 93 KLAMDMAKEMNAGYTLISAAHAGYL-------------T-PPNVIWGRLAENLSELCEYAENIGMDL 145 (275)
T ss_pred HHHHHHHHHhCCCEEEEcCCCCCCC-------------C-CHHHHHHHHHHHHHHHHHHHHHcCCEE
Confidence 3456888999988887 66544410 0 012335677788889999999999753
No 38
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=42.40 E-value=39 Score=26.81 Aligned_cols=43 Identities=23% Similarity=0.342 Sum_probs=35.2
Q ss_pred HHHHHHHHhCC------CHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHH
Q 041500 64 RVNEIAVKKGC------TPSQLALAWVHHQGNDVCPIPGTTKIENLNQNI 107 (157)
Q Consensus 64 ~l~~ia~~~g~------s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~ 107 (157)
.|.++|+++|. +..++-..|+.... .+.+..|+++|+.+-+.+
T Consensus 225 rL~ei~~~~~~~t~~Ie~~~el~~~~l~~~~-~VGiTAGASTP~~li~eV 273 (280)
T TIGR00216 225 RLYEIAEEHGPPSYLIETAEELPEEWLKGVK-VVGITAGASTPDWIIEEV 273 (280)
T ss_pred HHHHHHHHhCCCEEEECChHHCCHHHhCCCC-EEEEEecCCCCHHHHHHH
Confidence 88899999884 57899999998765 467899999999887644
No 39
>PRK11675 LexA regulated protein; Provisional
Probab=37.50 E-value=49 Score=21.66 Aligned_cols=24 Identities=25% Similarity=0.353 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHHH
Q 041500 59 KKLFERVNEIAVKKGCTPSQLALA 82 (157)
Q Consensus 59 ~~~~~~l~~ia~~~g~s~aqlaL~ 82 (157)
.+..+.|.++|++.|++.+++--.
T Consensus 59 edl~ekL~eyAe~~nitRSElIr~ 82 (90)
T PRK11675 59 ADLVDALNELAEARNISRSELIEE 82 (90)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHH
Confidence 467789999999999999887543
No 40
>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []. This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.
Probab=37.11 E-value=40 Score=17.92 Aligned_cols=18 Identities=22% Similarity=0.213 Sum_probs=13.0
Q ss_pred HHHHHHHHhCCCHHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLAL 81 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL 81 (157)
.+..||+++|++..++.-
T Consensus 8 tl~~IA~~~~~~~~~l~~ 25 (44)
T PF01476_consen 8 TLWSIAKRYGISVDELME 25 (44)
T ss_dssp -HHHHHHHTTS-HHHHHH
T ss_pred cHHHHHhhhhhhHhHHHH
Confidence 678899999998887753
No 41
>PF07027 DUF1318: Protein of unknown function (DUF1318); InterPro: IPR008309 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.96 E-value=94 Score=20.48 Aligned_cols=29 Identities=31% Similarity=0.177 Sum_probs=22.1
Q ss_pred HhhHHHHHHHHHHHHHhCCCHHHHHHHHH
Q 041500 56 EHNKKLFERVNEIAVKKGCTPSQLALAWV 84 (157)
Q Consensus 56 ~~~~~~~~~l~~ia~~~g~s~aqlaL~w~ 84 (157)
..+......+.+||++.|+++.++.-.+.
T Consensus 44 ~~N~~R~~~Y~~iA~~ng~t~~~V~~~~a 72 (95)
T PF07027_consen 44 AINADRRALYQEIAKKNGITVEQVAATAA 72 (95)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 44555666889999999999988776554
No 42
>COG2250 Uncharacterized conserved protein related to C-terminal domain of eukaryotic chaperone, SACSIN [Function unknown]
Probab=34.57 E-value=1e+02 Score=21.35 Aligned_cols=61 Identities=15% Similarity=0.121 Sum_probs=44.0
Q ss_pred CCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhhccCCcCCCCCCCC
Q 041500 74 CTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIASADAVRGHRYGGV 139 (157)
Q Consensus 74 ~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~~~~~~~~~~~~ 139 (157)
...+|++|+.++...+.. .|.+.+..+|-.++... +.++++.++.+..+... +...||++.
T Consensus 37 qQAvel~lKalL~~~~~~--~p~tH~l~~Ll~~l~~~-~~~~e~~~~~~~~Le~~--yi~srY~d~ 97 (132)
T COG2250 37 QQAVELALKALLIRLGGE--PPKTHSLRELLRELSRE-LEVPEEILECARELEKR--YILSRYPDA 97 (132)
T ss_pred HHHHHHHHHHHHHHhcCC--CCCcCCHHHHHHHHHHh-ccCcHHHHHHHHHHHHH--HhHhcCccc
Confidence 346899999999876433 89999999998888765 67888888777655433 234666554
No 43
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=34.57 E-value=29 Score=27.58 Aligned_cols=43 Identities=21% Similarity=0.367 Sum_probs=31.6
Q ss_pred HHHHHHHHhCC------CHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHH
Q 041500 64 RVNEIAVKKGC------TPSQLALAWVHHQGNDVCPIPGTTKIENLNQNI 107 (157)
Q Consensus 64 ~l~~ia~~~g~------s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~ 107 (157)
+|.++|+++|. ++.++-..|+.... .+.+..|+++|+.+-+.+
T Consensus 226 kL~eia~~~~~~t~~Ie~~~el~~~~l~~~~-~VGItaGASTP~~ii~eV 274 (281)
T PF02401_consen 226 KLAEIAKEHGKPTYHIETADELDPEWLKGVK-KVGITAGASTPDWIIEEV 274 (281)
T ss_dssp HHHHHHHHCTTCEEEESSGGG--HHHHTT-S-EEEEEE-TTS-HHHHHHH
T ss_pred HHHHHHHHhCCCEEEeCCccccCHhHhCCCC-EEEEEccCCCCHHHHHHH
Confidence 89999999885 47899999998876 467899999999987655
No 44
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=34.45 E-value=36 Score=21.94 Aligned_cols=24 Identities=17% Similarity=0.470 Sum_probs=18.2
Q ss_pred HhhHHHHHHHHHHHHHhCCCHHHH
Q 041500 56 EHNKKLFERVNEIAVKKGCTPSQL 79 (157)
Q Consensus 56 ~~~~~~~~~l~~ia~~~g~s~aql 79 (157)
....+++..+.++++++|+++.+|
T Consensus 20 ~e~~~~~~~i~~~~~~~Gis~~el 43 (93)
T PF00816_consen 20 QEREEAIAEIRELMAEYGISPEEL 43 (93)
T ss_dssp HCCHHHHHHHHHHHHHTT--HHHC
T ss_pred HHHHHHHHHHHHHHHHhCCCHHHh
Confidence 345577889999999999999998
No 45
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=34.23 E-value=31 Score=28.44 Aligned_cols=41 Identities=22% Similarity=0.070 Sum_probs=29.9
Q ss_pred ccccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCC
Q 041500 9 DSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCT 75 (157)
Q Consensus 9 ~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s 75 (157)
..+.+|+.|+++||.++. +.=.++ ...++.++++|++.|.+
T Consensus 59 ~L~~~L~~~~~~gIkvI~NaGg~np--------------------------~~~a~~v~eia~e~Gl~ 100 (362)
T PF07287_consen 59 DLRPLLPAAAEKGIKVITNAGGLNP--------------------------AGCADIVREIARELGLS 100 (362)
T ss_pred HHHHHHHHHHhCCCCEEEeCCCCCH--------------------------HHHHHHHHHHHHhcCCC
Confidence 456789999999999988 422222 12567889999998865
No 46
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=34.19 E-value=63 Score=21.10 Aligned_cols=41 Identities=15% Similarity=0.132 Sum_probs=28.3
Q ss_pred ccccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCC
Q 041500 9 DSSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCT 75 (157)
Q Consensus 9 ~~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s 75 (157)
.+.+++..|-++|+.++. -|++.. .+.+++|.++++++|+.
T Consensus 74 ~h~~~~~~~l~~g~~v~~EKP~~~~--------------------------~~~~~~l~~~a~~~~~~ 115 (120)
T PF01408_consen 74 SHAEIAKKALEAGKHVLVEKPLALT--------------------------LEEAEELVEAAKEKGVK 115 (120)
T ss_dssp GHHHHHHHHHHTTSEEEEESSSSSS--------------------------HHHHHHHHHHHHHHTSC
T ss_pred chHHHHHHHHHcCCEEEEEcCCcCC--------------------------HHHHHHHHHHHHHhCCE
Confidence 344566667777777777 777766 33455888888888754
No 47
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=33.73 E-value=44 Score=20.14 Aligned_cols=24 Identities=33% Similarity=0.577 Sum_probs=17.8
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHHhC
Q 041500 63 ERVNEIAVKKGCTPSQLALAWVHHQ 87 (157)
Q Consensus 63 ~~l~~ia~~~g~s~aqlaL~w~l~~ 87 (157)
..+.++|+++|+++.+ ...|....
T Consensus 24 ~sv~~va~~~gi~~~~-l~~W~~~~ 47 (76)
T PF01527_consen 24 ESVSEVAREYGISPST-LYNWRKQY 47 (76)
T ss_dssp CHHHHHHHHHTS-HHH-HHHHHHHH
T ss_pred CceEeeeccccccccc-ccHHHHHH
Confidence 4678999999996554 45888876
No 48
>PF13467 RHH_4: Ribbon-helix-helix domain; PDB: 3KK4_C.
Probab=33.44 E-value=69 Score=19.70 Aligned_cols=24 Identities=21% Similarity=0.372 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhCCCHHHHHHHHH
Q 041500 61 LFERVNEIAVKKGCTPSQLALAWV 84 (157)
Q Consensus 61 ~~~~l~~ia~~~g~s~aqlaL~w~ 84 (157)
..+.|.+||++.|++++++.-..-
T Consensus 22 FW~~L~eiA~~~g~s~~~li~~id 45 (67)
T PF13467_consen 22 FWDALEEIAAREGLSLNALIAEID 45 (67)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHH
Confidence 345899999999999988877653
No 49
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=32.45 E-value=1.6e+02 Score=23.24 Aligned_cols=16 Identities=19% Similarity=0.112 Sum_probs=12.6
Q ss_pred ccccccchhcCCeEec
Q 041500 11 SKLLHPCGSFHFCYIA 26 (157)
Q Consensus 11 ~~ll~~~~~~gi~v~~ 26 (157)
.++.+.|+++||..+.
T Consensus 137 ~~~~~~~~~~gi~~I~ 152 (265)
T COG0159 137 DELLKAAEKHGIDPIF 152 (265)
T ss_pred HHHHHHHHHcCCcEEE
Confidence 4577888888888877
No 50
>COG1026 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]
Probab=32.40 E-value=1.6e+02 Score=27.75 Aligned_cols=72 Identities=14% Similarity=0.175 Sum_probs=47.5
Q ss_pred hHhhHHHHHHHHHHHHHhCCC--HHHHHHHHHHhCC--CCeEeecCCCCHHHHHH----HHhccCCCCCHHHHHHHHhhh
Q 041500 55 LEHNKKLFERVNEIAVKKGCT--PSQLALAWVHHQG--NDVCPIPGTTKIENLNQ----NIKALSVKLSPEEMAELESIA 126 (157)
Q Consensus 55 ~~~~~~~~~~l~~ia~~~g~s--~aqlaL~w~l~~~--~v~~~I~G~~~~~ql~e----n~~a~~~~Ls~e~~~~l~~~~ 126 (157)
....+.....++.|-+..... -..+--+|++.+| .+.+++|...-.+++++ -++.....|++|+.++|.+-.
T Consensus 413 p~~~Lr~~~~~~~Lr~~le~~~~fe~LI~ky~l~N~h~~~v~~~Ps~~~~~~~ekee~e~L~~~~~~l~de~~~ki~~~~ 492 (978)
T COG1026 413 PEDSLRFLDYLQNLREKLEKGPYFEKLIRKYFLDNPHYVTVIVLPSPELEEKLEKEERELLQKRSSELTDEDLEKIIKDS 492 (978)
T ss_pred hhhhhhhHHHHHHHHHhhhcChHHHHHHHHHhhcCCccEEEEEecChHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence 344444444555555444444 6888899999988 34556677666666664 455556689999999886655
No 51
>PF10723 RepB-RCR_reg: Replication regulatory protein RepB; InterPro: IPR019661 This family of proteins regulates the replication of rolling circle replication (RCR) plasmids that have a double-strand replication origin (dso). Regulation of the replication of the RCR plasmids occurs mainly at the initiation of leading strand synthesis at the dso, such that concentration of Rep protein controls plasmid replication []. ; PDB: 2KEL_B.
Probab=32.15 E-value=95 Score=19.91 Aligned_cols=26 Identities=23% Similarity=0.419 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHH
Q 041500 60 KLFERVNEIAVKKGCTPSQLALAWVH 85 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~aqlaL~w~l 85 (157)
+..+.|.++|++.|+|.+|+.=.++.
T Consensus 51 ~~K~~L~~lc~~~GlTQae~IE~LI~ 76 (84)
T PF10723_consen 51 ELKERLEELCKEQGLTQAEMIERLIK 76 (84)
T ss_dssp HHHHHHHHHHHHS---HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 55679999999999999998765543
No 52
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=32.07 E-value=91 Score=19.03 Aligned_cols=27 Identities=22% Similarity=0.447 Sum_probs=20.1
Q ss_pred HHHHHHHHhCCC--HHHHHHHHHHhCCCC
Q 041500 64 RVNEIAVKKGCT--PSQLALAWVHHQGND 90 (157)
Q Consensus 64 ~l~~ia~~~g~s--~aqlaL~w~l~~~~v 90 (157)
.+.+|++..+.+ -..+||.|+..-+-|
T Consensus 24 s~~el~k~~~l~~~~~~~AiGWLarE~KI 52 (65)
T PF10771_consen 24 SVSELKKATGLSDKEVYLAIGWLARENKI 52 (65)
T ss_dssp EHHHHHHHCT-SCHHHHHHHHHHHCTTSE
T ss_pred CHHHHHHHhCcCHHHHHHHHHHHhccCce
Confidence 466777887766 588999999987644
No 53
>cd00423 Pterin_binding Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=32.00 E-value=82 Score=24.32 Aligned_cols=67 Identities=10% Similarity=0.162 Sum_probs=39.1
Q ss_pred CCcccccccc-ccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHH
Q 041500 1 MLQKFSCNDS-SKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPS 77 (157)
Q Consensus 1 ~~~~~~~~~~-~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~a 77 (157)
|+|.+|--.. ..+++.++++|..++. ---..|.... ..+.| +...+...+.+++..+.+.+.|++.-
T Consensus 99 iINdis~~~~~~~~~~l~~~~~~~vV~m~~~~~~~~~~---------~~~~~-~~~~~~~~~~~~~~i~~~~~~Gi~~~ 167 (258)
T cd00423 99 IINDVSGGRGDPEMAPLAAEYGAPVVLMHMDGTPQTMQ---------NNPYY-ADVVDEVVEFLEERVEAATEAGIPPE 167 (258)
T ss_pred EEEeCCCCCCChHHHHHHHHcCCCEEEECcCCCCcccc---------cCCCc-chHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 4566666543 7889999999988877 3222231100 11112 23356666667777777777786543
No 54
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=31.23 E-value=53 Score=18.24 Aligned_cols=19 Identities=26% Similarity=0.088 Sum_probs=11.7
Q ss_pred HHHHHHHHhCCCHHHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLALA 82 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~ 82 (157)
.|.++.++.|++..++|-.
T Consensus 6 ~l~~~r~~~gltq~~lA~~ 24 (58)
T TIGR03070 6 LVRARRKALGLTQADLADL 24 (58)
T ss_pred HHHHHHHHcCCCHHHHHHH
Confidence 4555556667776666654
No 55
>TIGR02899 spore_safA spore coat assembly protein SafA. in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.
Probab=30.50 E-value=62 Score=16.75 Aligned_cols=17 Identities=29% Similarity=0.261 Sum_probs=13.5
Q ss_pred HHHHHHHHhCCCHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLA 80 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqla 80 (157)
.+..||+++|++..+++
T Consensus 6 tl~~IA~~~~~~~~~l~ 22 (44)
T TIGR02899 6 TLWKIAKKYGVDFDELI 22 (44)
T ss_pred CHHHHHHHHCcCHHHHH
Confidence 56789999999877764
No 56
>COG4130 Predicted sugar epimerase [Carbohydrate transport and metabolism]
Probab=30.38 E-value=80 Score=24.42 Aligned_cols=51 Identities=12% Similarity=0.008 Sum_probs=30.9
Q ss_pred ccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCC
Q 041500 11 SKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCT 75 (157)
Q Consensus 11 ~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s 75 (157)
.++++|++.-|-..+. -|+..|-... ...........++.|+.|-++||++
T Consensus 86 ~~la~yA~acGA~aLvlcPlNd~s~~~--------------~~vr~~~lv~AlkaLkpil~~~gi~ 137 (272)
T COG4130 86 RGLADYAAACGAKALVLCPLNDGSWPG--------------TAVRREDLVEALKALKPILDEYGIT 137 (272)
T ss_pred HHHHHHHHhcCCceEEEEeccCCCCCC--------------cccchHHHHHHHHHhhHHHHHhCcc
Confidence 3455555666655555 5665552111 0123556677888999999999975
No 57
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=30.09 E-value=56 Score=17.94 Aligned_cols=16 Identities=31% Similarity=0.424 Sum_probs=10.3
Q ss_pred HHHHHHHHhCCCHHHH
Q 041500 64 RVNEIAVKKGCTPSQL 79 (157)
Q Consensus 64 ~l~~ia~~~g~s~aql 79 (157)
.+.+||+.+|+|.+.+
T Consensus 23 si~~IA~~~gvsr~Tv 38 (45)
T PF02796_consen 23 SIAEIAKQFGVSRSTV 38 (45)
T ss_dssp -HHHHHHHTTS-HHHH
T ss_pred CHHHHHHHHCcCHHHH
Confidence 5678888888877643
No 58
>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional
Probab=28.99 E-value=2.3e+02 Score=21.96 Aligned_cols=54 Identities=11% Similarity=0.035 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHhCCCH-------HHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCC
Q 041500 59 KKLFERVNEIAVKKGCTP-------SQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSV 112 (157)
Q Consensus 59 ~~~~~~l~~ia~~~g~s~-------aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~ 112 (157)
.+.+..+..-++.+|+++ ....++.+|+.+....++|-..+.++.++.+++..+
T Consensus 55 ~~~~~~~i~a~~~~g~~~lVRvp~~~~~~i~r~LD~Ga~giivP~v~tae~a~~~v~a~ky 115 (256)
T PRK10558 55 VSTFIPQLMALKGSASAPVVRVPTNEPVIIKRLLDIGFYNFLIPFVETAEEARRAVASTRY 115 (256)
T ss_pred HHHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhCCCCCeeeecCcCCHHHHHHHHHHcCC
Confidence 344445555566677642 345778899999888999999999999999887766
No 59
>PF03851 UvdE: UV-endonuclease UvdE; InterPro: IPR004601 Schizosaccharomyces pombe ultraviolet damage endonuclease (UVDE or Uve1p) performs the initial step in an alternative excision repair pathway for UV-induced DNA damage. This DNA repair pathway was originally thought to be specific for UV damage, however Uve1p also recognises UV-induced bipyrimidine photoadducts and other non-UV-induced DNA adducts []. The Deinococcus radiodurans UVSE protein has also shown to be a UV DNA damage endonuclease that catalyzes repair of UV-induced DNA damage by a similar mechanism [].; GO: 0004519 endonuclease activity, 0006289 nucleotide-excision repair, 0009411 response to UV; PDB: 3BZG_A 3BZJ_A 3C0L_A 3C0S_A 3C0Q_A.
Probab=28.81 E-value=58 Score=25.78 Aligned_cols=52 Identities=13% Similarity=0.186 Sum_probs=32.0
Q ss_pred cccccccccchhcCCeEec-c----cccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCC
Q 041500 8 NDSSKLLHPCGSFHFCYIA-L----PMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGC 74 (157)
Q Consensus 8 ~~~~~ll~~~~~~gi~v~~-~----pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~ 74 (157)
+....+|.++.++||.+.- | ||++= |.+...+.+...+..+++.++++++|+
T Consensus 45 ~~l~~~L~~n~~~~I~~yRisS~liP~ash---------------p~~~~~~~~~~~~~l~~iG~~~~~~~i 101 (275)
T PF03851_consen 45 EDLLRILEYNIAHGIRFYRISSDLIPLASH---------------PEVGWDWEEEFAEELAEIGDLAKENGI 101 (275)
T ss_dssp HHHHHHHHHHHHTT--EEE--TTSSTTTTS---------------TT--S-HHHHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHcCCCEEecCcccCCCCCC---------------cccccchHHHHHHHHHHHHHHHHHcCC
Confidence 3456788999999999987 4 33332 112223456777888888899998886
No 60
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=28.40 E-value=39 Score=16.26 Aligned_cols=15 Identities=33% Similarity=0.713 Sum_probs=9.9
Q ss_pred CCCCHHHHHHHHhhh
Q 041500 112 VKLSPEEMAELESIA 126 (157)
Q Consensus 112 ~~Ls~e~~~~l~~~~ 126 (157)
.+++++++.+|....
T Consensus 8 mPMSPddy~~l~~~V 22 (23)
T PF12162_consen 8 MPMSPDDYDELERMV 22 (23)
T ss_dssp --S-HHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHhh
Confidence 489999999987653
No 61
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=27.28 E-value=31 Score=22.72 Aligned_cols=67 Identities=22% Similarity=0.322 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccC-------CCCCHHHHHHHHhhhc
Q 041500 59 KKLFERVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALS-------VKLSPEEMAELESIAS 127 (157)
Q Consensus 59 ~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~-------~~Ls~e~~~~l~~~~~ 127 (157)
.+.++++.+||+..|..+...... .+.+| -....+|..+.+.+++.+...+ -+||+....-|++...
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q-~~~~~-~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~rNLe~~~~ 80 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQ-KRRKP-DPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQRNLEKALG 80 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEe-cCCCC-CcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHHHHHHHHHC
Confidence 355678999999888776543322 13333 2567899999999999776543 3799999999998873
No 62
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=27.06 E-value=1.1e+02 Score=21.52 Aligned_cols=24 Identities=17% Similarity=0.293 Sum_probs=19.3
Q ss_pred HhhHHHHHHHHHHHHHhCCCHHHH
Q 041500 56 EHNKKLFERVNEIAVKKGCTPSQL 79 (157)
Q Consensus 56 ~~~~~~~~~l~~ia~~~g~s~aql 79 (157)
.+..+++.++.+++.++|+++.++
T Consensus 52 ~er~~~l~~i~~~~~~~Git~eeL 75 (134)
T PRK10328 52 AERQEKINTWLELMKADGINPEEL 75 (134)
T ss_pred HHHHHHHHHHHHHHHHhCCCHHHH
Confidence 344567788888889999999988
No 63
>COG5484 Uncharacterized conserved protein [Function unknown]
Probab=26.69 E-value=52 Score=25.88 Aligned_cols=24 Identities=29% Similarity=0.763 Sum_probs=19.7
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHhCC
Q 041500 64 RVNEIAVKKGCTPSQLALAWVHHQG 88 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w~l~~~ 88 (157)
.+.+||+++|+++.++= .|-..++
T Consensus 21 k~~dIAeklGvspntik-sWKrr~g 44 (279)
T COG5484 21 KLKDIAEKLGVSPNTIK-SWKRRDG 44 (279)
T ss_pred cHHHHHHHhCCChHHHH-HHHHhcC
Confidence 78899999999999874 6766655
No 64
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=25.81 E-value=68 Score=18.46 Aligned_cols=13 Identities=46% Similarity=0.657 Sum_probs=9.5
Q ss_pred HHHHHhCCCHHHH
Q 041500 67 EIAVKKGCTPSQL 79 (157)
Q Consensus 67 ~ia~~~g~s~aql 79 (157)
+||+..|++++|+
T Consensus 33 ~La~~~gi~~~qV 45 (50)
T PF06971_consen 33 ELAEALGITPAQV 45 (50)
T ss_dssp HHHHHHTS-HHHH
T ss_pred HHHHHHCCCHHHh
Confidence 5778888888886
No 65
>PF00984 UDPG_MGDP_dh: UDP-glucose/GDP-mannose dehydrogenase family, central domain; InterPro: IPR014026 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents an alpha helical region that serves as the dimerisation interface for these enzymes [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 2O3J_A 3OJO_A 3OJL_A 3PLR_A 3PJG_A 3PID_A 3PLN_A 3PHL_A 3TDK_B 2Q3E_A ....
Probab=25.16 E-value=1.7e+02 Score=19.10 Aligned_cols=39 Identities=13% Similarity=0.026 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCCe--EeecCC
Q 041500 58 NKKLFERVNEIAVKKGCTPSQLALAWVHHQGNDV--CPIPGT 97 (157)
Q Consensus 58 ~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v~--~~I~G~ 97 (157)
....+.++..+|++.|++..++.-....+ +.+. ...||.
T Consensus 18 ~iaf~Nel~~lce~~giD~~~V~~~~~~d-~ri~~~~~~pg~ 58 (96)
T PF00984_consen 18 KIAFANELARLCEKLGIDVYEVIEAANTD-PRIGPHYLRPGP 58 (96)
T ss_dssp HHHHHHHHHHHHHHHTSBHHHHHHHHHTS-TTTTSSS-S-SS
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHccC-cccccccCCCCC
Confidence 44667899999999999999999887776 5554 455553
No 66
>PRK10945 gene expression modulator; Provisional
Probab=24.84 E-value=1.4e+02 Score=18.61 Aligned_cols=31 Identities=29% Similarity=0.326 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHHhccCCCCCHHHHHHHHhhh
Q 041500 96 GTTKIENLNQNIKALSVKLSPEEMAELESIA 126 (157)
Q Consensus 96 G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~ 126 (157)
.+++.+-|+..++-....|++.|+..+...+
T Consensus 17 rcss~eTLEkvie~~~~~L~~~E~~~f~~Aa 47 (72)
T PRK10945 17 RCQTIDTLERVIEKNKYELSDDELAVFYSAA 47 (72)
T ss_pred hcCcHHHHHHHHHHhhccCCHHHHHHHHHHH
Confidence 5788999999999888899999998887765
No 67
>PLN02438 inositol-3-phosphate synthase
Probab=24.71 E-value=1.3e+02 Score=25.96 Aligned_cols=84 Identities=18% Similarity=0.263 Sum_probs=62.9
Q ss_pred hHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCC-CCHHHHHHHHhccCCCCCHHHHHHHHhhhccCCcCC
Q 041500 55 LEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGT-TKIENLNQNIKALSVKLSPEEMAELESIASADAVRG 133 (157)
Q Consensus 55 ~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~-~~~~ql~en~~a~~~~Ls~e~~~~l~~~~~~~~~~~ 133 (157)
.+...++.+.|+++.+++|++- +..-|+-+.....-+++|. .+.+.+++.++.-+-.+++..+-....+. .+
T Consensus 203 ~e~ve~ir~DIr~Fk~~n~ld~--vVVlwtAsTEr~~~~~~~~~~t~~~l~~ai~~~~~eispS~~YA~AAl~-----eG 275 (510)
T PLN02438 203 KEQMDQIRKDIREFKEKNKVDK--VVVLWTANTERYSNVVVGLNDTMENLLASIEKDEAEISPSTLYALACIL-----EG 275 (510)
T ss_pred HHHHHHHHHHHHHHHHHhCCCe--EEEEECCCCCCCCcCCCcccCCHHHHHHHHhcCCCcCChHHHHHHHHHH-----cC
Confidence 4555566678889999988774 5666888876544445455 69999999999877799999998888776 45
Q ss_pred CCCCCCCCCccC
Q 041500 134 HRYGGVTPTYED 145 (157)
Q Consensus 134 ~~~~~~~~~~~~ 145 (157)
..|.+..|.-.+
T Consensus 276 ~~fVNgsP~~t~ 287 (510)
T PLN02438 276 VPFINGSPQNTF 287 (510)
T ss_pred CCeEecCCcccc
Confidence 778887775554
No 68
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=24.69 E-value=1.5e+02 Score=17.48 Aligned_cols=53 Identities=11% Similarity=0.055 Sum_probs=33.3
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCCCCCHHHHHHHHhhh
Q 041500 63 ERVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSVKLSPEEMAELESIA 126 (157)
Q Consensus 63 ~~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~~Ls~e~~~~l~~~~ 126 (157)
--+..+|+++|+|+.++.-.|-.. +. .+.+.++.+.+...-.+..++.|....
T Consensus 6 ~~Ie~~A~~~~~s~~ea~~~~~~~-~~----------~~~i~~~Yd~lHt~s~~yivedi~~~l 58 (62)
T PF12668_consen 6 FCIEEFAKKLNISGEEAYNYFKRS-GV----------IDYIIDCYDVLHTQSDEYIVEDIIEYL 58 (62)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHc-Cc----------HHHHHHcchHHHHCcHHHHHHHHHHHH
Confidence 367899999999999987776533 31 235555555544444444455555554
No 69
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=24.65 E-value=68 Score=26.44 Aligned_cols=30 Identities=27% Similarity=0.283 Sum_probs=24.5
Q ss_pred HhCCC---HHHHHHHHHHhCCCCeEeecCCCCH
Q 041500 71 KKGCT---PSQLALAWVHHQGNDVCPIPGTTKI 100 (157)
Q Consensus 71 ~~g~s---~aqlaL~w~l~~~~v~~~I~G~~~~ 100 (157)
+.|++ +..-+.+|+|+++.|..+|+|+.+.
T Consensus 217 ~~GI~vtlI~Dsav~~~M~~~~Vd~VivGAd~I 249 (356)
T PRK08334 217 YDGIPLKLISDNMAGFVMQQGKVDAIIVGADRI 249 (356)
T ss_pred HCCCCEEEEehhHHHHHhhhcCCCEEEECccEE
Confidence 45776 4788889999988899999998754
No 70
>PF12551 PHBC_N: Poly-beta-hydroxybutyrate polymerase N terminal; InterPro: IPR022211 This domain family is found in bacteria and eukaryotes, and is approximately 50 amino acids in length. The family is found in association with PF07167 from PFAM, PF00561 from PFAM. There is a single completely conserved residue W that may be functionally important. PHBC is the third enzyme of the poly-beta-hydroxybutyrate biosynthetic pathway.
Probab=24.03 E-value=72 Score=18.13 Aligned_cols=13 Identities=46% Similarity=0.838 Sum_probs=11.3
Q ss_pred hCCCHHHHHHHHH
Q 041500 72 KGCTPSQLALAWV 84 (157)
Q Consensus 72 ~g~s~aqlaL~w~ 84 (157)
.|+||+.++++|+
T Consensus 22 ~GlSPaal~lA~~ 34 (46)
T PF12551_consen 22 GGLSPAALALAYL 34 (46)
T ss_pred cCcCHHHHHHHHH
Confidence 6799999999885
No 71
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=23.43 E-value=1.4e+02 Score=16.61 Aligned_cols=23 Identities=26% Similarity=0.329 Sum_probs=19.0
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHH
Q 041500 63 ERVNEIAVKKGCTPSQLALAWVH 85 (157)
Q Consensus 63 ~~l~~ia~~~g~s~aqlaL~w~l 85 (157)
+.+..||.+.|++..||-.-|-.
T Consensus 28 ~~~~~la~~~~l~~~qV~~WF~n 50 (59)
T cd00086 28 EEREELAKELGLTERQVKIWFQN 50 (59)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHH
Confidence 48899999999999998876543
No 72
>PRK06424 transcription factor; Provisional
Probab=23.40 E-value=2.2e+02 Score=20.19 Aligned_cols=25 Identities=16% Similarity=0.122 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHHHH
Q 041500 59 KKLFERVNEIAVKKGCTPSQLALAW 83 (157)
Q Consensus 59 ~~~~~~l~~ia~~~g~s~aqlaL~w 83 (157)
......|+.+-++.|+|..+||-+-
T Consensus 83 ~~~g~~Ir~lRe~~GLSQ~eLA~~i 107 (144)
T PRK06424 83 EDYAELVKNARERLSMSQADLAAKI 107 (144)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHh
Confidence 3444567777788899998888663
No 73
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=23.31 E-value=1.4e+02 Score=16.30 Aligned_cols=20 Identities=20% Similarity=0.157 Sum_probs=14.5
Q ss_pred HHHHHHHHhCCCHHHHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLALAW 83 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w 83 (157)
.+.+||++.|+|.+++.=++
T Consensus 19 s~~~la~~lglS~~~v~~Ri 38 (42)
T PF13404_consen 19 SYAELAEELGLSESTVRRRI 38 (42)
T ss_dssp -HHHHHHHHTS-HHHHHHHH
T ss_pred cHHHHHHHHCcCHHHHHHHH
Confidence 57789999999988876554
No 74
>PF02570 CbiC: Precorrin-8X methylmutase; InterPro: IPR003722 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CbiC and CobH precorrin-8X methylmutase (also known as precorrin isomerase, 5.4.1.2 from EC), both as stand-alone enzymes and when CobJ forms part of a bifunctional enzyme. CobH and CbiC from the aerobic and anaerobic pathways, respectively, catalyse a methyl rearrangement in precorrin-8 that moves the methyl group from C-11 to C-12 to produce hydrogenobyrinic acid []. Hydrogenobyrinic acid now contains all the major framework alterations associated with corrin synthesis []. CobH and CbiC can sometimes be fused to other enzymes in the cobalamin pathway to make bifunctional enzymes: e.g., with CobJ/CibH (precorrin-3B C17-methylase/precorrin isomerase, IPR014422 from INTERPRO) and with CbiX (precorrin isomerase, IPR012067 from INTERPRO).; GO: 0016993 precorrin-8X methylmutase activity, 0009236 cobalamin biosynthetic process; PDB: 1V9C_B 1I1H_A 1F2V_A 1OU0_B 2AFV_A 2AFR_A 3E7D_D.
Probab=23.30 E-value=2e+02 Score=21.63 Aligned_cols=35 Identities=23% Similarity=0.229 Sum_probs=26.9
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCC
Q 041500 64 RVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTT 98 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~ 98 (157)
...++|++.|.|-+..+++..........+++|-.
T Consensus 94 ~v~~~A~~~g~TRs~aa~~~a~~~~~~~I~vIGNA 128 (198)
T PF02570_consen 94 EVAELAKEEGITRSAAAMRKAAKELPGAIVVIGNA 128 (198)
T ss_dssp HHHHHHHHHTS-HHHHHHHHHHCTTTTCEEEESS-
T ss_pred chHHHHhhcCCcHHHHHHHHHHHHcCCcEEEEeCc
Confidence 67889999999999999999998655566666654
No 75
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=23.15 E-value=93 Score=20.15 Aligned_cols=16 Identities=25% Similarity=0.389 Sum_probs=13.1
Q ss_pred HHHHHHHhCCCHHHHH
Q 041500 65 VNEIAVKKGCTPSQLA 80 (157)
Q Consensus 65 l~~ia~~~g~s~aqla 80 (157)
..+|++++|+|.+.+.
T Consensus 52 yreIa~~tgvS~aTIt 67 (87)
T PF01371_consen 52 YREIAEETGVSIATIT 67 (87)
T ss_dssp HHHHHHHHTSTHHHHH
T ss_pred HHHHHHHhCCCHHHHH
Confidence 4689999999988774
No 76
>PF03861 ANTAR: ANTAR domain; InterPro: IPR005561 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins []. This domain has been detected in various response regulators of two-component systems, which are structured around two proteins, a histidine kinase and a response regulator. This domain is also found in one-component sensory regulators from a variety of bacteria. Most response regulators interact with DNA, however ANTAR-containing regulators interact with RNA. The majority of the domain consists of a coiled-coil.; PDB: 4AKK_A 1SD5_A 1S8N_A 1QO0_E.
Probab=22.81 E-value=1.4e+02 Score=17.16 Aligned_cols=22 Identities=9% Similarity=0.194 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHhCCCHHHHHH
Q 041500 60 KLFERVNEIAVKKGCTPSQLAL 81 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~aqlaL 81 (157)
+..+.|...|.+.|+++.++|-
T Consensus 32 ~A~~~Lr~~Am~~~~~l~~vA~ 53 (56)
T PF03861_consen 32 EAYRLLRRQAMRRRRSLADVAE 53 (56)
T ss_dssp HHHHHHHHHHHHCTS-HHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHH
Confidence 3445666777777777776664
No 77
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=22.66 E-value=57 Score=17.94 Aligned_cols=14 Identities=29% Similarity=0.418 Sum_probs=10.2
Q ss_pred HHHHHHHHHHhCCC
Q 041500 62 FERVNEIAVKKGCT 75 (157)
Q Consensus 62 ~~~l~~ia~~~g~s 75 (157)
+.+|.++|+++|++
T Consensus 7 ~~eL~~iAk~lgI~ 20 (43)
T PF07498_consen 7 LSELREIAKELGIE 20 (43)
T ss_dssp HHHHHHHHHCTT-T
T ss_pred HHHHHHHHHHcCCC
Confidence 45888999888874
No 78
>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]
Probab=22.57 E-value=1.5e+02 Score=24.36 Aligned_cols=99 Identities=19% Similarity=0.142 Sum_probs=58.0
Q ss_pred cccccccccccccchhcCCeEec--ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCC---HHH
Q 041500 4 KFSCNDSSKLLHPCGSFHFCYIA--LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCT---PSQ 78 (157)
Q Consensus 4 ~~~~~~~~~ll~~~~~~gi~v~~--~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s---~aq 78 (157)
+||-.+..+.+++++++|..+.+ ..+.... ..+.....++. +.+.|++ .+.
T Consensus 45 nfs~~~l~e~i~~ah~~gkk~~V~~N~~~~~~--------------------~~~~~~~~l~~----l~e~GvDaviv~D 100 (347)
T COG0826 45 NFSVEDLAEAVELAHSAGKKVYVAVNTLLHND--------------------ELETLERYLDR----LVELGVDAVIVAD 100 (347)
T ss_pred cCCHHHHHHHHHHHHHcCCeEEEEeccccccc--------------------hhhHHHHHHHH----HHHcCCCEEEEcC
Confidence 58888889999999999985444 3333220 01222222222 2334654 233
Q ss_pred HHHHHHHh-----CCCCeEeecCCCCHHHHHHHHhc--c----CCCCCHHHHHHHHhhh
Q 041500 79 LALAWVHH-----QGNDVCPIPGTTKIENLNQNIKA--L----SVKLSPEEMAELESIA 126 (157)
Q Consensus 79 laL~w~l~-----~~~v~~~I~G~~~~~ql~en~~a--~----~~~Ls~e~~~~l~~~~ 126 (157)
.++-.++. .|...++...++|.+.++-.-+- . ...|+-+++.+|.+-.
T Consensus 101 pg~i~l~~e~~p~l~ih~S~q~~v~N~~~~~f~~~~G~~rvVl~rEls~~ei~~i~~~~ 159 (347)
T COG0826 101 PGLIMLARERGPDLPIHVSTQANVTNAETAKFWKELGAKRVVLPRELSLEEIKEIKEQT 159 (347)
T ss_pred HHHHHHHHHhCCCCcEEEeeeEecCCHHHHHHHHHcCCEEEEeCccCCHHHHHHHHHhC
Confidence 33333333 45567788888898888865442 1 2378888887776554
No 79
>PF14096 DUF4274: Domain of unknown function (DUF4274)
Probab=22.43 E-value=89 Score=19.36 Aligned_cols=26 Identities=8% Similarity=0.152 Sum_probs=18.3
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHhCCC
Q 041500 64 RVNEIAVKKGCTPSQLALAWVHHQGN 89 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w~l~~~~ 89 (157)
++..++.+++-+-..-.+.|++.||.
T Consensus 6 ~lh~~~~~~NwD~~~~v~~~il~~p~ 31 (77)
T PF14096_consen 6 ELHALADNYNWDDGFEVPKWILEHPK 31 (77)
T ss_pred HHHHHHHHcCCCCCcHHHHHHHcCCc
Confidence 66677777776666667777777774
No 80
>PRK08286 cbiC cobalt-precorrin-8X methylmutase; Validated
Probab=22.42 E-value=1.3e+02 Score=22.96 Aligned_cols=45 Identities=22% Similarity=0.206 Sum_probs=30.5
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCC--CHHHHHHHHh
Q 041500 64 RVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTT--KIENLNQNIK 108 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~--~~~ql~en~~ 108 (157)
...++|++.|+|-+..+++....+++...+++|-. -.-.|-+.++
T Consensus 107 ~v~e~A~~~g~TRsaaam~~a~~~~~~~IvvIGNAPTAL~~l~~li~ 153 (214)
T PRK08286 107 RVVELAKEQGITRSMAAVDIAAAEEGPKLFVFGNAPTALFRLLEMVE 153 (214)
T ss_pred chHHHHHhcCCcHHHHHHHHHHhccCCcEEEEeCcHHHHHHHHHHHH
Confidence 56678999999999999988887655445566632 3344444443
No 81
>KOG1718 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=22.31 E-value=2.1e+02 Score=21.27 Aligned_cols=34 Identities=18% Similarity=0.363 Sum_probs=25.2
Q ss_pred HhhHHHHHHHHHHHHHhCCCH----------HHHHHHHHHhCCC
Q 041500 56 EHNKKLFERVNEIAVKKGCTP----------SQLALAWVHHQGN 89 (157)
Q Consensus 56 ~~~~~~~~~l~~ia~~~g~s~----------aqlaL~w~l~~~~ 89 (157)
+..-.+++.|+.+-.+.|+++ |.++|+|++.+..
T Consensus 78 ~hfD~vAD~I~~v~~~gG~TLvHC~AGVSRSAsLClAYLmK~~~ 121 (198)
T KOG1718|consen 78 DHFDPVADKIHSVIMRGGKTLVHCVAGVSRSASLCLAYLMKYHC 121 (198)
T ss_pred hhhhHHHHHHHHHHhcCCcEEEEEccccchhHHHHHHHHHHHcc
Confidence 444456678888888777652 8899999998874
No 82
>PHA01623 hypothetical protein
Probab=22.29 E-value=1.5e+02 Score=17.42 Aligned_cols=20 Identities=20% Similarity=0.169 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHhCCCHHHH
Q 041500 60 KLFERVNEIAVKKGCTPSQL 79 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~aql 79 (157)
...+.|..+|.++|++.+++
T Consensus 23 el~~~Ld~y~~~~g~~rSe~ 42 (56)
T PHA01623 23 DLKTRLKVYCAKNNLQLTQA 42 (56)
T ss_pred HHHHHHHHHHHHcCCCHHHH
Confidence 45668999999999996554
No 83
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=22.08 E-value=1.2e+02 Score=26.57 Aligned_cols=60 Identities=20% Similarity=0.199 Sum_probs=39.1
Q ss_pred CCccchHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhc
Q 041500 50 FQPENLEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKA 109 (157)
Q Consensus 50 ~~~~~~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a 109 (157)
|.+...++..+.+..|..+++|||+++..+.-..--.+......--+-.+.++|+..++.
T Consensus 294 ~Dp~~L~~ve~Rl~~L~~l~RKY~~~~~~l~~~~~~~~~el~~L~~~~~~~~~Le~~~~~ 353 (557)
T COG0497 294 FDPNRLEEVEERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESLEALEKEVKK 353 (557)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 555667888899999999999999998776543322222233334445556666654443
No 84
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=21.99 E-value=1e+02 Score=16.84 Aligned_cols=17 Identities=29% Similarity=0.436 Sum_probs=10.4
Q ss_pred HHHHHHHHhCCCHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLA 80 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqla 80 (157)
.+.+||+..|++.+.|.
T Consensus 22 s~~~IA~~lg~s~sTV~ 38 (44)
T PF13936_consen 22 SIREIAKRLGRSRSTVS 38 (44)
T ss_dssp -HHHHHHHTT--HHHHH
T ss_pred CHHHHHHHHCcCcHHHH
Confidence 56788888888877654
No 85
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=21.99 E-value=1.1e+02 Score=17.79 Aligned_cols=19 Identities=21% Similarity=0.289 Sum_probs=15.5
Q ss_pred HHHHHHHHhCCCHHHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLALA 82 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~ 82 (157)
.+.+||++.|++.+.+.-.
T Consensus 25 tl~elA~~lgis~st~~~~ 43 (53)
T PF04967_consen 25 TLEELAEELGISKSTVSEH 43 (53)
T ss_pred CHHHHHHHhCCCHHHHHHH
Confidence 6889999999998877543
No 86
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=21.89 E-value=1.6e+02 Score=16.46 Aligned_cols=23 Identities=26% Similarity=0.180 Sum_probs=18.4
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHH
Q 041500 62 FERVNEIAVKKGCTPSQLALAWV 84 (157)
Q Consensus 62 ~~~l~~ia~~~g~s~aqlaL~w~ 84 (157)
...+..||.+.|++..+|-.-|.
T Consensus 27 ~~~~~~la~~l~l~~~~V~~WF~ 49 (57)
T PF00046_consen 27 KEEREELAKELGLTERQVKNWFQ 49 (57)
T ss_dssp HHHHHHHHHHHTSSHHHHHHHHH
T ss_pred ccccccccccccccccccccCHH
Confidence 35788999999999999866553
No 87
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=21.33 E-value=1.1e+02 Score=19.61 Aligned_cols=27 Identities=33% Similarity=0.266 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHhCCCH-HHHHHHHHHh
Q 041500 60 KLFERVNEIAVKKGCTP-SQLALAWVHH 86 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~-aqlaL~w~l~ 86 (157)
..+..+.++|+++|+.. ....|+-.|.
T Consensus 27 ~~A~~I~~~A~e~~VPi~~~~~LAr~L~ 54 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVEDPDLVDVLL 54 (82)
T ss_pred HHHHHHHHHHHHcCCCEEeCHHHHHHHH
Confidence 44569999999999874 3344444444
No 88
>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase. In E. coli this enzyme (GarL, ) 2-dehydro-3-deoxyglucarate aldolase acts in the catabolism of several sugars including D-galactarate, D-glucarate and L-idarate. In fact, 5-dehydro-4-deoxy-D-glucarate aldolase is a synonym for this enzyme as it is unclear in the literature whether the enzyme acts on only one of these or, as seems likely, has no preference. (Despite the apparent large difference in substrate stucture indicated by their names, 2-DH-3DO- and 5-DH-4DO-glucarate differ only by the chirality of most central hydroxyl-bearing carbon and is alternately named 2-DH-3DO-galactarate.) The reported product of D-galactarate dehydratase (4.2.1.42) is the 5DH-4DO-glucarate isomer and this enzyme is found proximal to the aldolase in many genomes (GenProp0714) where no epimerase is known. Similarly, the product of D-glucarate dehydratase (4.2.1.40) is again the 5-DH-4DO isomer, so the provenance of the 2-DH-3DO-glucarate isomer for which
Probab=21.33 E-value=3.9e+02 Score=20.62 Aligned_cols=53 Identities=13% Similarity=0.045 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHhCCCH-------HHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhccCC
Q 041500 60 KLFERVNEIAVKKGCTP-------SQLALAWVHHQGNDVCPIPGTTKIENLNQNIKALSV 112 (157)
Q Consensus 60 ~~~~~l~~ia~~~g~s~-------aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a~~~ 112 (157)
+.+..+..-++..|+++ ....++.+|+.+....++|-+.+.++.++.+++..+
T Consensus 49 ~~~~~~~~a~~~~g~~~~VRvp~~~~~~i~r~LD~Ga~gIivP~v~taeea~~~v~a~ky 108 (249)
T TIGR03239 49 LTFIPQLMALKGSASAPVVRPPWNEPVIIKRLLDIGFYNFLIPFVESAEEAERAVAATRY 108 (249)
T ss_pred HHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhcCCCCEEEecCcCCHHHHHHHHHHcCC
Confidence 33445555556667652 344678899999888999999999999999887766
No 89
>TIGR00629 uvde UV damage endonuclease UvdE. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.29 E-value=90 Score=25.23 Aligned_cols=51 Identities=18% Similarity=0.201 Sum_probs=31.7
Q ss_pred ccccccccchhcCCeEec-c----cccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCC
Q 041500 9 DSSKLLHPCGSFHFCYIA-L----PMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGC 74 (157)
Q Consensus 9 ~~~~ll~~~~~~gi~v~~-~----pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~ 74 (157)
....+|.++.++||.+.- | ||++- +.+...+.+...+.++++.++|+++|+
T Consensus 53 ~l~~~L~~n~~~~I~f~RisS~l~P~ash---------------~~~~~~~~~~~~~~l~~iG~~a~~~~i 108 (312)
T TIGR00629 53 DTMKTLHWNIGHGIPFYRFSSSIFPFASH---------------PDVGYDLVTFAQKELREIGELAKTHQH 108 (312)
T ss_pred HHHHHHHHHHHcCCcEEecCccccCcCcC---------------chhhhhHHHHHHHHHHHHHHHHHHcCe
Confidence 445678899999999887 3 33332 111111234555677778888887665
No 90
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=21.29 E-value=40 Score=27.44 Aligned_cols=57 Identities=7% Similarity=0.063 Sum_probs=32.6
Q ss_pred cccccccchhcCCeEec-ccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCC
Q 041500 10 SSKLLHPCGSFHFCYIA-LPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCT 75 (157)
Q Consensus 10 ~~~ll~~~~~~gi~v~~-~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s 75 (157)
..+.++.++++||.|++ --+-.+. . .+.++ .+.....+.....+++|.+||+.||..
T Consensus 48 p~~~idaAHknGV~Vlgti~~e~~~----~--~~~~~---~lL~~~~~~~~~~a~kLv~lak~yGfD 105 (339)
T cd06547 48 PADWINAAHRNGVPVLGTFIFEWTG----Q--VEWLE---DFLKKDEDGSFPVADKLVEVAKYYGFD 105 (339)
T ss_pred CcHHHHHHHhcCCeEEEEEEecCCC----c--hHHHH---HHhccCcccchHHHHHHHHHHHHhCCC
Confidence 36788999999999998 4222110 0 00000 010110233456778999999998854
No 91
>cd00739 DHPS DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.
Probab=21.26 E-value=1.7e+02 Score=22.69 Aligned_cols=69 Identities=12% Similarity=0.234 Sum_probs=39.6
Q ss_pred CCcccccccc-ccccccchhcCCeEecccccCCccCCCCCCCCccCCCCCCCccchHhhHHHHHHHHHHHHHhCCCHHH
Q 041500 1 MLQKFSCNDS-SKLLHPCGSFHFCYIALPMHVNVKSIDKSKESLFLHQPRFQPENLEHNKKLFERVNEIAVKKGCTPSQ 78 (157)
Q Consensus 1 ~~~~~~~~~~-~~ll~~~~~~gi~v~~~pl~~G~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~ia~~~g~s~aq 78 (157)
|+|..+.-.. ..+++.++++|..++.-+. .|. |.... ..+.| ....+......++..+.|.++|++.-+
T Consensus 99 iINdisg~~~~~~~~~l~~~~~~~vV~m~~-~g~------p~~~~-~~~~~-~~~~~~~~~~~~~~i~~~~~~Gi~~~~ 168 (257)
T cd00739 99 IINDVSGGSDDPAMLEVAAEYGAPLVLMHM-RGT------PKTMQ-ENPYY-EDVVDEVLSFLEARLEAAESAGVARNR 168 (257)
T ss_pred EEEeCCCCCCChHHHHHHHHcCCCEEEECC-CCC------Ccccc-cCCCc-ccHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 3566666543 6788889999988887222 331 11000 01112 223455666677777888888876433
No 92
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=20.94 E-value=1.4e+02 Score=26.58 Aligned_cols=42 Identities=12% Similarity=0.211 Sum_probs=33.6
Q ss_pred HHHHHHHHhCC------CHHHHHHHHHHhCCCCeEeecCCCCHHHHHHH
Q 041500 64 RVNEIAVKKGC------TPSQLALAWVHHQGNDVCPIPGTTKIENLNQN 106 (157)
Q Consensus 64 ~l~~ia~~~g~------s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en 106 (157)
.|.++|++.|. ++.++-..|+.... ...+..|+++|+.+-+.
T Consensus 223 ~L~~i~~~~~~~~~~ie~~~el~~~~~~~~~-~vgitagaStP~~~i~~ 270 (647)
T PRK00087 223 KLYEICKSNCTNTIHIENAGELPEEWFKGVK-IIGVTAGASTPDWIIEE 270 (647)
T ss_pred HHHHHHHHHCCCEEEECChHHCCHHHhCCCC-EEEEEeccCCCHHHHHH
Confidence 88899988874 47889889987765 46788999999977653
No 93
>TIGR02127 pyrF_sub2 orotidine 5'-phosphate decarboxylase, subfamily 2. This model represents orotidine 5'-monophosphate decarboxylase, the PyrF protein of pyrimidine nucleotide biosynthesis. See TIGR01740 for a related but distinct subfamily of the same enzyme.
Probab=20.86 E-value=2.2e+02 Score=22.23 Aligned_cols=37 Identities=16% Similarity=0.058 Sum_probs=23.0
Q ss_pred CCCHHHHHHHHHHhCC------CCeEeecCCCCHHHHHHHHhc
Q 041500 73 GCTPSQLALAWVHHQG------NDVCPIPGTTKIENLNQNIKA 109 (157)
Q Consensus 73 g~s~aqlaL~w~l~~~------~v~~~I~G~~~~~ql~en~~a 109 (157)
|.++.+..+.++..-. +...+|+|+++++.+++.-+.
T Consensus 165 ~~~~~~~V~~~a~~~~~~~~~~g~~GvV~gAT~p~e~~~iR~~ 207 (261)
T TIGR02127 165 GRTVYEEVAELAGELNESPGDCSSVGAVVGATSPGDLLRLRIE 207 (261)
T ss_pred CCCHHHHHHHHHHHhccccCcCCceEEEECCCCHHHHHHHHHh
Confidence 3355555555444432 357899999998877765443
No 94
>cd01068 sensor_globin Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic heme sensors combining a globin with an MCP signaling domain, others function as gene regulators, by direct combination with DNA-binding domains, with domains modulating 2nd messengers, or with domains interacting with transcription factors or regulators.
Probab=20.56 E-value=1.6e+02 Score=20.15 Aligned_cols=74 Identities=9% Similarity=0.069 Sum_probs=54.3
Q ss_pred hHhhHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCCCeEeecCCCCHHHHHHHHhc-----cCCCCCHHHHHHHHhhhcc
Q 041500 55 LEHNKKLFERVNEIAVKKGCTPSQLALAWVHHQGNDVCPIPGTTKIENLNQNIKA-----LSVKLSPEEMAELESIASA 128 (157)
Q Consensus 55 ~~~~~~~~~~l~~ia~~~g~s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~en~~a-----~~~~Ls~e~~~~l~~~~~~ 128 (157)
.+...+.++.+..+.+++.-.++.--..+++++|.....+-...+.++++..... ++-+++++-++....+...
T Consensus 13 ~~~d~~~l~~~~~~~~~~~~~i~~~FY~~l~~~p~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~d~~y~~~~~~iG~~ 91 (147)
T cd01068 13 DEDDLSLLKALRPVIEANADELVDRFYDHLRRTPETAAFLGDESVVERLKSTQRRHWVELFSGVYDEAYIAQRVRIGEV 91 (147)
T ss_pred CHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhcChHHHHHhCCchHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 3456677788888888888788999999999999877766666667777764332 3346777777777777654
No 95
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=20.36 E-value=1.2e+02 Score=17.82 Aligned_cols=19 Identities=37% Similarity=0.251 Sum_probs=15.9
Q ss_pred HHHHHHHHhCCCHHHHHHH
Q 041500 64 RVNEIAVKKGCTPSQLALA 82 (157)
Q Consensus 64 ~l~~ia~~~g~s~aqlaL~ 82 (157)
++.-+|+++|+|..||.-+
T Consensus 22 ev~ywa~~~gvt~~~L~~A 40 (57)
T PF12244_consen 22 EVRYWAKRFGVTEEQLREA 40 (57)
T ss_pred HHHHHHHHHCcCHHHHHHH
Confidence 7888999999999887655
No 96
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=20.31 E-value=1.7e+02 Score=16.14 Aligned_cols=20 Identities=10% Similarity=0.134 Sum_probs=13.6
Q ss_pred hhHHHHHHHHHHHHHhCCCH
Q 041500 57 HNKKLFERVNEIAVKKGCTP 76 (157)
Q Consensus 57 ~~~~~~~~l~~ia~~~g~s~ 76 (157)
+.+..+++|-.+|+..+.+.
T Consensus 2 kil~kI~kLLalA~~~~~~~ 21 (43)
T PF10979_consen 2 KILEKIRKLLALAESTGSNE 21 (43)
T ss_pred hHHHHHHHHHHHhhCCCCCH
Confidence 35566777777777766665
No 97
>PF11017 DUF2855: Protein of unknown function (DUF2855); InterPro: IPR021276 This family of proteins has no known function.
Probab=20.24 E-value=51 Score=26.68 Aligned_cols=50 Identities=14% Similarity=0.294 Sum_probs=35.0
Q ss_pred CHHHHHHHHHHhCCCCeEeecCCCCHHHHH--HHHhccCCCCCHHHHHHHHh
Q 041500 75 TPSQLALAWVHHQGNDVCPIPGTTKIENLN--QNIKALSVKLSPEEMAELES 124 (157)
Q Consensus 75 s~aqlaL~w~l~~~~v~~~I~G~~~~~ql~--en~~a~~~~Ls~e~~~~l~~ 124 (157)
|-..++|+|+|.+.....-++|.++..+.. +.+...+.-++-+++..|+.
T Consensus 146 SKTA~glA~~L~~~~~~~~~vglTS~~N~~Fve~lg~Yd~V~~Yd~i~~l~~ 197 (314)
T PF11017_consen 146 SKTAIGLAYCLKKQRGPPKVVGLTSARNVAFVESLGCYDEVLTYDDIDSLDA 197 (314)
T ss_pred hHHHHHHHHHhhccCCCceEEEEecCcchhhhhccCCceEEeehhhhhhccC
Confidence 457899999999444466677777766655 45556666778777777744
Done!