Query psy14494
Match_columns 470
No_of_seqs 203 out of 1537
Neff 8.4
Searched_HMMs 46136
Date Fri Aug 16 21:12:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14494.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14494hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0415 PhrB Deoxyribodipyrimi 100.0 9E-120 2E-124 907.4 38.0 427 3-464 31-461 (461)
2 TIGR02766 crypt_chrom_pln cryp 100.0 3E-118 6E-123 933.2 41.4 439 2-460 24-474 (475)
3 PRK10674 deoxyribodipyrimidine 100.0 6E-113 1E-117 888.5 42.9 434 2-464 30-469 (472)
4 TIGR03556 photolyase_8HDF deox 100.0 3E-112 7E-117 882.8 42.5 439 2-462 28-470 (471)
5 TIGR02765 crypto_DASH cryptoch 100.0 8E-100 2E-104 786.0 39.8 390 2-412 28-429 (429)
6 PF03441 FAD_binding_7: FAD bi 100.0 6E-92 1.3E-96 682.8 17.5 272 189-464 1-277 (277)
7 TIGR00591 phr2 photolyase PhrI 100.0 3.4E-87 7.4E-92 695.6 27.5 371 2-408 54-454 (454)
8 KOG0133|consensus 100.0 3.3E-78 7.2E-83 611.6 17.0 452 2-466 32-496 (531)
9 COG3046 Uncharacterized protei 100.0 1.1E-33 2.4E-38 272.2 25.3 349 24-393 44-428 (505)
10 PF00875 DNA_photolyase: DNA p 99.9 3.7E-26 8.1E-31 205.9 12.4 133 1-137 25-157 (165)
11 PF04244 DPRP: Deoxyribodipyri 98.1 1E-05 2.2E-10 75.9 8.6 114 24-140 40-162 (224)
12 KOG0133|consensus 92.7 0.023 5E-07 59.4 -1.1 180 189-382 300-501 (531)
13 PRK12652 putative monovalent c 79.6 14 0.0003 37.5 9.8 59 45-103 80-149 (357)
14 TIGR00289 conserved hypothetic 74.2 16 0.00035 34.3 8.0 70 29-101 41-115 (222)
15 TIGR01088 aroQ 3-dehydroquinat 72.9 23 0.0005 30.6 7.8 67 43-113 38-107 (141)
16 cd01994 Alpha_ANH_like_IV This 72.7 20 0.00044 32.9 8.2 86 2-102 25-119 (194)
17 cd01988 Na_H_Antiporter_C The 72.7 39 0.00085 27.8 9.6 72 2-77 29-103 (132)
18 COG1087 GalE UDP-glucose 4-epi 70.9 2.4 5.1E-05 41.5 1.6 78 358-462 151-243 (329)
19 PRK09982 universal stress prot 69.8 61 0.0013 27.6 10.3 70 33-103 68-137 (142)
20 PF10087 DUF2325: Uncharacteri 67.1 26 0.00056 28.0 6.8 68 35-106 12-84 (97)
21 cd00293 USP_Like Usp: Universa 65.4 61 0.0013 26.1 9.2 71 2-76 29-101 (130)
22 TIGR01490 HAD-SF-IB-hyp1 HAD-s 65.1 30 0.00065 31.3 7.8 45 31-75 88-132 (202)
23 TIGR00290 MJ0570_dom MJ0570-re 65.1 42 0.0009 31.6 8.7 65 34-101 46-115 (223)
24 COG1139 Uncharacterized conser 63.1 30 0.00065 35.6 7.6 67 34-104 66-134 (459)
25 cd01989 STK_N The N-terminal d 61.6 92 0.002 26.3 9.9 46 32-77 64-112 (146)
26 cd00128 XPG Xeroderma pigmento 60.4 18 0.00039 35.9 5.7 14 189-202 231-244 (316)
27 PRK15005 universal stress prot 59.1 76 0.0017 26.7 8.9 45 33-77 70-116 (144)
28 PF00702 Hydrolase: haloacid d 58.9 21 0.00045 32.5 5.5 40 32-71 129-168 (215)
29 TIGR03674 fen_arch flap struct 58.6 30 0.00066 34.7 7.0 15 188-202 243-257 (338)
30 cd00466 DHQase_II Dehydroquina 58.1 1.2E+02 0.0027 26.1 9.9 68 42-113 37-107 (140)
31 PRK05395 3-dehydroquinate dehy 57.7 1.3E+02 0.0028 26.2 9.9 67 43-113 40-109 (146)
32 COG2217 ZntA Cation transport 57.0 29 0.00062 38.6 6.9 59 37-100 544-602 (713)
33 PRK13015 3-dehydroquinate dehy 56.5 1.4E+02 0.003 26.1 9.9 68 42-113 39-109 (146)
34 PF01220 DHquinase_II: Dehydro 56.0 1E+02 0.0022 26.7 8.7 68 43-114 39-109 (140)
35 PRK10116 universal stress prot 55.1 1.3E+02 0.0027 25.3 11.8 66 38-104 69-138 (142)
36 PF06415 iPGM_N: BPG-independe 53.0 94 0.002 29.2 8.7 75 33-107 14-105 (223)
37 PRK15118 universal stress glob 52.3 1.4E+02 0.0031 25.1 9.8 67 36-103 68-137 (144)
38 PRK14719 bifunctional RNAse/5- 51.4 34 0.00074 34.7 6.0 61 41-101 37-99 (360)
39 COG0560 SerB Phosphoserine pho 50.8 20 0.00043 33.4 3.9 45 32-76 79-123 (212)
40 PRK15456 universal stress prot 50.5 42 0.00091 28.5 5.8 46 31-76 66-113 (142)
41 TIGR01488 HAD-SF-IB Haloacid D 48.1 20 0.00043 31.7 3.4 39 35-73 78-116 (177)
42 COG3590 PepO Predicted metallo 47.1 8 0.00017 40.9 0.7 44 361-411 476-519 (654)
43 PRK09590 celB cellobiose phosp 46.9 1.6E+02 0.0034 24.1 8.2 67 30-104 16-82 (104)
44 PRK10490 sensor protein KdpD; 46.5 1.1E+02 0.0024 35.1 9.9 93 2-105 280-374 (895)
45 PRK03980 flap endonuclease-1; 46.4 56 0.0012 32.1 6.5 15 188-202 196-210 (292)
46 TIGR01491 HAD-SF-IB-PSPlk HAD- 45.7 35 0.00075 30.7 4.7 18 57-75 86-103 (201)
47 PRK09484 3-deoxy-D-manno-octul 45.5 53 0.0011 29.6 5.8 57 33-99 55-111 (183)
48 PTZ00217 flap endonuclease-1; 45.2 62 0.0013 33.3 6.8 13 189-201 243-255 (393)
49 PF02571 CbiJ: Precorrin-6x re 45.0 1.1E+02 0.0024 29.3 8.1 56 47-104 43-100 (249)
50 COG2102 Predicted ATPases of P 44.3 1.5E+02 0.0032 27.9 8.4 70 30-102 43-117 (223)
51 TIGR01544 HAD-SF-IE haloacid d 42.8 40 0.00087 32.8 4.8 36 34-69 125-160 (277)
52 COG2179 Predicted hydrolase of 42.8 94 0.002 27.8 6.5 56 39-100 55-110 (175)
53 PF05368 NmrA: NmrA-like famil 42.5 87 0.0019 29.0 7.0 65 37-103 35-100 (233)
54 PRK14010 potassium-transportin 41.5 1.2E+02 0.0025 33.7 8.6 60 33-97 444-503 (673)
55 PRK01122 potassium-transportin 41.4 1.2E+02 0.0025 33.7 8.6 51 33-85 448-498 (679)
56 KOG1615|consensus 40.9 33 0.00072 31.4 3.5 42 34-75 92-135 (227)
57 COG1412 Uncharacterized protei 40.8 85 0.0018 27.1 5.9 46 53-108 83-128 (136)
58 PF11994 DUF3489: Protein of u 40.7 25 0.00054 26.7 2.3 39 303-348 18-56 (72)
59 PF12710 HAD: haloacid dehalog 40.4 62 0.0013 28.7 5.5 41 37-77 96-138 (192)
60 PF08444 Gly_acyl_tr_C: Aralky 40.1 44 0.00096 26.5 3.8 47 26-72 32-78 (89)
61 PF03392 OS-D: Insect pheromon 39.9 13 0.00028 29.9 0.7 14 395-408 82-95 (95)
62 PRK08057 cobalt-precorrin-6x r 39.8 1.8E+02 0.0039 27.8 8.7 47 56-104 53-99 (248)
63 cd01987 USP_OKCHK USP domain i 39.7 97 0.0021 25.3 6.2 43 35-77 51-94 (124)
64 TIGR03679 arCOG00187 arCOG0018 39.3 1.8E+02 0.004 27.0 8.6 64 34-101 44-116 (218)
65 cd06294 PBP1_ycjW_transcriptio 39.1 1.5E+02 0.0033 27.6 8.3 71 29-105 17-91 (270)
66 TIGR01525 ATPase-IB_hvy heavy 38.8 1.7E+02 0.0037 31.5 9.4 45 31-75 385-430 (556)
67 TIGR00273 iron-sulfur cluster- 38.0 84 0.0018 32.8 6.5 69 31-103 49-119 (432)
68 TIGR01497 kdpB K+-transporting 38.0 1.9E+02 0.0042 32.0 9.6 51 32-84 448-498 (675)
69 PF01902 ATP_bind_4: ATP-bindi 37.8 91 0.002 29.2 6.2 64 36-102 48-116 (218)
70 PF13911 AhpC-TSA_2: AhpC/TSA 37.4 77 0.0017 25.9 5.2 40 35-76 2-44 (115)
71 PRK10343 RNA-binding protein Y 37.4 1.8E+02 0.0039 23.5 6.9 63 49-111 20-87 (97)
72 cd06279 PBP1_LacI_like_3 Ligan 37.4 2.1E+02 0.0045 27.2 9.0 71 29-105 17-87 (283)
73 PF00582 Usp: Universal stress 36.7 2.2E+02 0.0048 22.8 9.2 57 47-103 81-139 (140)
74 TIGR01512 ATPase-IB2_Cd heavy 35.9 1.2E+02 0.0026 32.6 7.6 46 31-76 363-409 (536)
75 cd06313 PBP1_ABC_sugar_binding 35.7 2.3E+02 0.0049 26.8 8.9 73 29-106 12-89 (272)
76 PF01591 6PF2K: 6-phosphofruct 35.4 2E+02 0.0043 27.0 8.1 69 24-93 73-146 (222)
77 PF07476 MAAL_C: Methylasparta 35.3 1.2E+02 0.0026 28.4 6.3 70 30-102 120-194 (248)
78 TIGR01545 YfhB_g-proteo haloac 34.5 85 0.0018 29.0 5.5 26 41-66 106-131 (210)
79 cd07322 PriL_PriS_Eukaryotic E 34.4 1.1E+02 0.0025 31.3 6.7 46 314-360 226-271 (390)
80 TIGR00338 serB phosphoserine p 34.2 51 0.0011 30.3 3.9 34 38-71 93-126 (219)
81 TIGR01670 YrbI-phosphatas 3-de 33.4 1.2E+02 0.0026 26.3 6.0 55 38-98 36-90 (154)
82 PF03709 OKR_DC_1_N: Orn/Lys/A 33.3 2.7E+02 0.0059 22.9 7.8 70 33-105 4-75 (115)
83 PF08218 Citrate_ly_lig: Citra 33.0 2.3E+02 0.0049 25.7 7.5 96 3-104 28-144 (182)
84 cd06277 PBP1_LacI_like_1 Ligan 33.0 2.5E+02 0.0054 26.2 8.7 69 30-105 16-88 (268)
85 cd01427 HAD_like Haloacid deha 32.9 98 0.0021 25.0 5.2 49 30-78 24-76 (139)
86 PF13167 GTP-bdg_N: GTP-bindin 32.8 2.6E+02 0.0056 22.4 9.3 63 32-100 7-83 (95)
87 PLN02954 phosphoserine phospha 32.7 58 0.0013 30.0 4.1 27 41-67 95-121 (224)
88 COG2205 KdpD Osmosensitive K+ 32.6 6E+02 0.013 28.8 12.0 94 2-106 278-375 (890)
89 cd05565 PTS_IIB_lactose PTS_II 32.6 2.4E+02 0.0053 22.7 7.1 62 36-104 18-79 (99)
90 PRK11590 hypothetical protein; 32.5 1.1E+02 0.0023 28.2 5.8 36 40-75 106-144 (211)
91 PF13727 CoA_binding_3: CoA-bi 31.9 73 0.0016 27.7 4.5 45 57-103 130-174 (175)
92 PLN02770 haloacid dehalogenase 31.8 1.3E+02 0.0027 28.5 6.3 46 33-78 111-160 (248)
93 cd01018 ZntC Metal binding pro 31.2 2.7E+02 0.0058 26.7 8.5 71 29-104 148-224 (266)
94 PF07085 DRTGG: DRTGG domain; 31.1 1.5E+02 0.0033 23.7 5.9 61 35-103 31-91 (105)
95 PF00578 AhpC-TSA: AhpC/TSA fa 31.1 1.6E+02 0.0035 23.8 6.2 46 31-76 44-90 (124)
96 TIGR00253 RNA_bind_YhbY putati 30.8 2.5E+02 0.0053 22.6 6.7 56 50-108 19-80 (95)
97 TIGR00853 pts-lac PTS system, 30.4 2.8E+02 0.0061 22.1 8.1 62 36-104 21-82 (95)
98 TIGR03333 salvage_mtnX 2-hydro 30.2 78 0.0017 29.1 4.5 32 34-65 74-105 (214)
99 PRK10826 2-deoxyglucose-6-phos 29.9 54 0.0012 30.3 3.4 14 42-55 104-117 (222)
100 cd06305 PBP1_methylthioribose_ 29.6 2.8E+02 0.0061 25.8 8.5 72 30-106 13-89 (273)
101 cd01540 PBP1_arabinose_binding 29.1 3.3E+02 0.0072 25.7 8.9 72 30-106 13-88 (289)
102 PF13419 HAD_2: Haloacid dehal 28.5 1E+02 0.0022 26.4 4.8 10 55-64 81-90 (176)
103 cd01545 PBP1_SalR Ligand-bindi 28.5 3.7E+02 0.008 24.9 9.0 73 29-106 12-89 (270)
104 PRK08384 thiamine biosynthesis 28.3 2.9E+02 0.0062 28.3 8.4 70 24-93 16-96 (381)
105 PF13407 Peripla_BP_4: Peripla 27.7 1.2E+02 0.0026 28.3 5.4 72 30-106 12-89 (257)
106 cd06267 PBP1_LacI_sugar_bindin 27.6 4E+02 0.0087 24.3 9.0 70 30-106 13-87 (264)
107 PRK10517 magnesium-transportin 27.2 3.2E+02 0.0069 31.5 9.5 39 32-70 552-590 (902)
108 TIGR01511 ATPase-IB1_Cu copper 26.3 3.2E+02 0.007 29.5 9.0 42 32-74 407-448 (562)
109 PRK10671 copA copper exporting 26.3 3.3E+02 0.0071 31.0 9.4 44 37-82 657-700 (834)
110 TIGR00884 guaA_Cterm GMP synth 26.1 3.8E+02 0.0081 26.6 8.7 74 30-106 2-80 (311)
111 cd06297 PBP1_LacI_like_12 Liga 26.0 3.8E+02 0.0083 25.0 8.7 71 29-105 12-86 (269)
112 PF08765 Mor: Mor transcriptio 25.7 2E+02 0.0042 23.5 5.6 67 27-93 3-70 (108)
113 TIGR02634 xylF D-xylose ABC tr 25.5 4.9E+02 0.011 25.0 9.5 73 28-105 10-87 (302)
114 TIGR02137 HSK-PSP phosphoserin 25.5 72 0.0016 29.4 3.3 41 34-75 72-112 (203)
115 PRK15122 magnesium-transportin 25.3 3.3E+02 0.0072 31.4 9.2 39 32-70 552-590 (903)
116 smart00475 53EXOc 5'-3' exonuc 25.2 2.1E+02 0.0045 27.6 6.5 48 31-78 82-133 (259)
117 PF02142 MGS: MGS-like domain 25.2 95 0.0021 24.6 3.5 41 60-100 52-93 (95)
118 PRK13223 phosphoglycolate phos 25.1 1.2E+02 0.0026 29.2 5.0 37 33-69 104-140 (272)
119 TIGR01454 AHBA_synth_RP 3-amin 25.0 92 0.002 28.2 4.0 17 54-71 78-94 (205)
120 cd06295 PBP1_CelR Ligand bindi 24.9 5.5E+02 0.012 23.9 9.6 70 30-105 24-95 (275)
121 PF10406 TAF8_C: Transcription 24.8 1.7E+02 0.0036 20.5 4.3 27 441-467 21-47 (51)
122 KOG0207|consensus 24.7 2.4E+02 0.0052 32.1 7.4 42 40-83 733-774 (951)
123 cd01542 PBP1_TreR_like Ligand- 24.6 5.2E+02 0.011 23.7 9.2 69 30-105 13-86 (259)
124 COG0113 HemB Delta-aminolevuli 24.5 2.4E+02 0.0053 27.8 6.6 52 3-60 34-88 (330)
125 cd06300 PBP1_ABC_sugar_binding 24.5 4.8E+02 0.01 24.3 9.1 72 29-105 12-93 (272)
126 PLN02347 GMP synthetase 24.3 4.3E+02 0.0092 28.5 9.2 77 29-106 213-293 (536)
127 PRK08238 hypothetical protein; 24.2 1.9E+02 0.0041 30.6 6.5 47 32-78 74-121 (479)
128 TIGR03351 PhnX-like phosphonat 24.0 1.5E+02 0.0033 27.0 5.3 46 32-77 89-140 (220)
129 TIGR01464 hemE uroporphyrinoge 23.9 5.9E+02 0.013 25.2 9.8 66 6-79 197-265 (338)
130 TIGR01524 ATPase-IIIB_Mg magne 23.8 3.8E+02 0.0083 30.7 9.3 39 32-70 517-555 (867)
131 PRK02249 DNA primase large sub 23.7 1.7E+02 0.0037 29.5 5.7 44 314-358 224-267 (343)
132 COG0589 UspA Universal stress 23.6 2.1E+02 0.0046 23.7 5.8 46 31-76 72-121 (154)
133 TIGR01548 HAD-SF-IA-hyp1 haloa 23.4 3.4E+02 0.0073 24.3 7.4 35 36-70 112-146 (197)
134 cd05564 PTS_IIB_chitobiose_lic 23.3 3.8E+02 0.0082 21.2 7.1 62 35-103 16-77 (96)
135 TIGR01428 HAD_type_II 2-haloal 23.2 1.1E+02 0.0025 27.4 4.1 20 55-75 96-116 (198)
136 cd06323 PBP1_ribose_binding Pe 23.1 4.9E+02 0.011 23.9 8.8 72 29-105 12-88 (268)
137 cd01537 PBP1_Repressors_Sugar_ 23.0 5.5E+02 0.012 23.2 9.1 71 30-106 13-88 (264)
138 cd06273 PBP1_GntR_like_1 This 23.0 5.7E+02 0.012 23.6 9.2 69 30-105 13-86 (268)
139 TIGR02990 ectoine_eutA ectoine 22.9 2.3E+02 0.0051 26.8 6.3 50 56-108 107-156 (239)
140 TIGR01647 ATPase-IIIA_H plasma 22.7 3.7E+02 0.008 30.3 8.8 38 34-71 446-483 (755)
141 PF00440 TetR_N: Bacterial reg 22.7 92 0.002 21.0 2.6 37 315-356 1-37 (47)
142 cd06272 PBP1_hexuronate_repres 22.5 5.7E+02 0.012 23.5 9.1 70 29-105 12-82 (261)
143 cd06301 PBP1_rhizopine_binding 22.4 6.3E+02 0.014 23.4 9.4 72 30-106 13-90 (272)
144 cd00384 ALAD_PBGS Porphobilino 22.3 3.5E+02 0.0075 26.8 7.3 51 3-56 24-74 (314)
145 PRK05265 pyridoxine 5'-phospha 22.2 6.4E+02 0.014 24.0 8.8 71 31-102 111-189 (239)
146 TIGR00268 conserved hypothetic 22.2 4.7E+02 0.01 24.8 8.3 71 35-107 2-75 (252)
147 TIGR02726 phenyl_P_delta pheny 22.1 3E+02 0.0065 24.5 6.5 51 42-98 46-96 (169)
148 TIGR01489 DKMTPPase-SF 2,3-dik 22.0 99 0.0021 27.3 3.5 16 56-72 77-92 (188)
149 COG2873 MET17 O-acetylhomoseri 22.0 1.7E+02 0.0036 29.8 5.1 65 37-102 117-182 (426)
150 cd06312 PBP1_ABC_sugar_binding 21.9 5.8E+02 0.012 23.8 9.0 73 29-106 13-91 (271)
151 PRK11133 serB phosphoserine ph 21.9 1.5E+02 0.0034 29.4 5.1 42 34-75 185-226 (322)
152 cd00221 Vsr Very Short Patch R 21.8 1.7E+02 0.0037 24.3 4.5 26 81-106 88-113 (115)
153 cd01017 AdcA Metal binding pro 21.7 3.6E+02 0.0079 26.0 7.6 68 32-104 152-227 (282)
154 TIGR01449 PGP_bact 2-phosphogl 21.5 1.6E+02 0.0035 26.6 4.9 21 54-75 88-109 (213)
155 PRK05593 rplR 50S ribosomal pr 21.4 1.8E+02 0.0039 24.4 4.5 42 58-100 76-117 (117)
156 cd04185 GT_2_like_b Subfamily 21.3 3.1E+02 0.0067 24.3 6.7 82 28-111 9-94 (202)
157 cd06322 PBP1_ABC_sugar_binding 21.2 5.5E+02 0.012 23.7 8.7 72 29-105 12-88 (267)
158 TIGR01684 viral_ppase viral ph 21.2 2.7E+02 0.0058 27.5 6.3 46 33-78 149-198 (301)
159 COG3473 Maleate cis-trans isom 21.1 4.3E+02 0.0093 24.7 7.1 47 65-114 114-160 (238)
160 PRK09552 mtnX 2-hydroxy-3-keto 21.0 1.3E+02 0.0028 27.8 4.1 17 58-75 81-97 (219)
161 TIGR00060 L18_bact ribosomal p 20.9 1.9E+02 0.0041 24.1 4.5 41 59-100 74-114 (114)
162 cd06320 PBP1_allose_binding Pe 20.8 6.3E+02 0.014 23.5 9.1 71 30-105 13-90 (275)
163 COG0546 Gph Predicted phosphat 20.8 95 0.0021 28.8 3.1 38 33-70 92-129 (220)
164 cd01536 PBP1_ABC_sugar_binding 20.7 5.7E+02 0.012 23.4 8.6 72 29-105 12-88 (267)
165 PRK04017 hypothetical protein; 20.6 3.6E+02 0.0077 23.1 6.2 42 32-76 6-51 (132)
166 PF04104 DNA_primase_lrg: Euka 20.4 98 0.0021 29.8 3.2 45 314-359 110-154 (260)
167 PRK11175 universal stress prot 20.4 5.6E+02 0.012 24.6 8.8 73 34-106 70-147 (305)
168 PF05822 UMPH-1: Pyrimidine 5' 20.4 1.2E+02 0.0025 29.0 3.6 37 31-67 91-127 (246)
169 COG2185 Sbm Methylmalonyl-CoA 20.2 3.5E+02 0.0076 23.5 6.2 81 24-113 25-107 (143)
170 TIGR00715 precor6x_red precorr 20.2 4E+02 0.0086 25.6 7.3 45 58-104 55-99 (256)
171 COG0656 ARA1 Aldo/keto reducta 20.1 4.4E+02 0.0095 25.7 7.6 27 76-104 164-190 (280)
172 cd06310 PBP1_ABC_sugar_binding 20.1 6.5E+02 0.014 23.3 9.0 72 29-105 12-90 (273)
173 PRK05434 phosphoglyceromutase; 20.0 6.4E+02 0.014 26.9 9.4 74 33-106 96-186 (507)
No 1
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.2e-120 Score=907.39 Aligned_cols=427 Identities=36% Similarity=0.699 Sum_probs=383.3
Q ss_pred EEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHH
Q psy14494 3 VYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQA 82 (470)
Q Consensus 3 vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~ 82 (470)
+|+|||+||+++. .. |++|.+||.+||++|+++|+++||+|+|..|++..+|+++++++++++|++|.+|++.+
T Consensus 31 ~~~vfi~~~~~~~--~~----~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~ 104 (461)
T COG0415 31 IIAVFILDPEQLG--HA----SPRHAAFLLQSLQALQQSLAELGIPLLVREGDPEQVLPELAKQLAATTVFWNRDYEEWE 104 (461)
T ss_pred eEEEEEechhhcc--cc----CHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCHHHHHHHHHHHhCcceEEeeeeechhH
Confidence 4789999999987 45 99999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhhcccccCCCCCccccccccccc--ch
Q psy14494 83 IIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNNLVHS--SK 160 (470)
Q Consensus 83 ~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~ 160 (470)
..||.+|++.|.+.||.++.|+|++|++|+++.+..|++|+|||+|+|+|...+... .|.+.|.....+... +.
T Consensus 105 ~~rD~al~~~l~~~gi~~~~~~d~~l~~p~~~~t~~~~~y~vfT~F~k~~~~~~~~~----~~~~~p~~~~~~~~~~~~~ 180 (461)
T COG0415 105 RQRDAALAQPLTEVGIAVHSFWDALLHEPGEVRTGSGEPYKVFTPFYKAWRDRLRIL----RPVPAPDVLDALRDEEPPP 180 (461)
T ss_pred HHHHHHHHHHHHhcCceEEEeccccccCHhhccCCCCCCccccchHHHHHHHhcccC----CCCCCcchhccccccccCc
Confidence 999999999999999999999999999999999999999999999999998874422 233344221111100 00
Q ss_pred hhhhccCcCCCcccCCCCcCCCCCCCCCccHHHHHHHHHHHHH-HhhcccccCCCCCCCCCCcccHhhhcCCccHHHHHH
Q psy14494 161 LHKIINNNIISLNDLGFCKSNLSSLGIKTGASGAKILLNNFIK-KIKNYNINRNYPSINGTSYLSIHLRFGTISIRKLVK 239 (470)
Q Consensus 161 ~~~~~~~~~~~l~~l~~~~~~~~~~~~~gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~R~v~~ 239 (470)
. ....|. +. ......++|||++|+++|++|++ ++.+|+..||+|+.++||+|||||+||+||||+|++
T Consensus 181 ~----~~~~P~-----~~--~~~~~~~~~Ge~aA~~~l~~F~~~~l~~Y~~~Rd~p~~~~TS~LSpyL~~G~IS~r~v~~ 249 (461)
T COG0415 181 E----EISLPD-----FS--KFDVLLFTGGEKAALARLQDFLAEGLDDYERTRDFPALDGTSRLSPYLAFGVISPREVYA 249 (461)
T ss_pred c----cccCCc-----cc--cccccCCCchHHHHHHHHHHHHHHHHHHHHHhcCCcccccccccCHHHHcCCcCHHHHHH
Confidence 0 011111 00 11123589999999999999999 999999999999999999999999999999999999
Q ss_pred HHHHHhhhhcccCCcchHHHHHHHHHHHHHHHHHHhCCcc-cccccchhhccCCCCCchhhhHHHhhhhcCCCCchHHHH
Q psy14494 240 LIFKFIKKHYKTDCIGYFTWLSQLIWRDFYQMILYCYPNV-VNKSFKKEYDNILWESDNYAKKNFLNWCKGYTGYPLIDS 318 (470)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~~-~~~~~~~~~~~~~w~~d~~~~~~~~~w~~G~TG~p~vDA 318 (470)
++++... ...++...|++||+|||||++++.++|++ ...++...+..++|.+++ +.|++|++|+||||||||
T Consensus 250 ~~~~~~~----~~~~~~~~~~~eL~WREFy~h~~~~~p~~~~~~~~~~~~~~~~w~~~~---~~f~aW~~G~TGyPIVDA 322 (461)
T COG0415 250 ALLAAES----DAREGTAALINELIWREFYQHLLYHYPSLSRFEPFAEKTLNIPWEDNP---AHFQAWQEGKTGYPIVDA 322 (461)
T ss_pred HHHHhhh----cccchHHHHHHHHHHHHHHHHHHHhCCcccccccccccccCCccccCH---HHHHHHhcCCCCCccccH
Confidence 9988632 23567788999999999999999999999 667999999999999999 999999999999999999
Q ss_pred HHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCcccccChhhhhhhc
Q psy14494 319 AIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRIFNPIIQSKKF 398 (470)
Q Consensus 319 ~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~np~~q~~k~ 398 (470)
|||||++||||||||||||||||||+|+||||+||+||+++|||||+|||+|||||+||+|+|++||||||||++|++||
T Consensus 323 ~MRqL~~TG~MHNR~RMivAsFL~k~L~IdWR~GE~~F~~~LiD~D~asN~ggWQW~AstG~Da~pyfRiFNp~~Q~~kf 402 (461)
T COG0415 323 AMRQLNQTGYMHNRMRMIVASFLTKDLLIDWREGEKYFMRQLIDGDPASNNGGWQWAASTGTDAAPYFRIFNPVTQAEKF 402 (461)
T ss_pred HHHHHHHhCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHhccCCCcccCCCCeeEEeccCCCCCcceeccCHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcchhHHhhccccccCCCccccCccccChHHHHHcCCccCCCCCCCCCChHHHHHHHHHHHHHHH
Q psy14494 399 DYQGIFIRKYLPQLSKLSNKYIHSPWKASSYKLEKAGIILGKNYPKPILEHSLSKKNILKRYNFIK 464 (470)
Q Consensus 399 Dp~g~yIr~w~PeL~~~p~~~ih~pw~~~~~~~~~~~~~~~~~YP~pivd~~~~~~~~~~~~~~~~ 464 (470)
||+|+|||+|||||++||+++||+||+++. +.+|.+||+|||||+++|++++++|+..+
T Consensus 403 Dp~g~fIr~wvPeL~~~~~~~ih~p~~~~~-------~~~~~~YP~piVd~~~~r~~a~~~y~~~~ 461 (461)
T COG0415 403 DPDGEFIRRWVPELRNLPDKYIHEPWELSE-------VVLGVDYPKPIVDHKESREQALAAYEAAK 461 (461)
T ss_pred CCCcccHHhhCHHhhCCChhhccChhhccc-------ccccCCCCccccccHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999986 56789999999999999999999999753
No 2
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=100.00 E-value=2.7e-118 Score=933.15 Aligned_cols=439 Identities=26% Similarity=0.462 Sum_probs=382.5
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEE-EcChHHHHHHHHHhcCcCEEEEeccCCh
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIR-YAIASKEIKKLVIKLNIDAVMINHDYEP 80 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~-~g~~~~~l~~L~~~~~~~~V~~~~~~~~ 80 (470)
+||||||+||.++..... +.++.+||++||.+|+++|+++|++|+|+ .|+++++|.+|+++++|++|++|++|++
T Consensus 24 ~vlpvyi~dp~~~~~~~~----~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l~~l~~~~~i~~v~~~~~~~~ 99 (475)
T TIGR02766 24 PVIPVFVWAPEEEGQYYP----GRVSRWWLKQSLAHLDQSLRSLGTCLVTIRSTDTVAALLDCVRSTGATRLFFNHLYDP 99 (475)
T ss_pred CEEEEEEechHHhccccc----cHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCCHHHHHHHHHHHcCCCEEEEecccCH
Confidence 599999999998865445 88888899999999999999999999998 4899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhhcccccCCCCCcccccccccccch
Q psy14494 81 QAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNNLVHSSK 160 (470)
Q Consensus 81 ~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (470)
++++||++|+++|++.||.++.+++++|++|+++.+..|++|++||+|+++|.+....+ +.+.+.|.... .....
T Consensus 100 ~~~~rd~~v~~~l~~~gi~~~~~~~~~l~~p~~i~~~~~~~~~~ft~f~~~~~~~~~~~---~~~~~~p~~~~-~~~~~- 174 (475)
T TIGR02766 100 VSLVRDHRAKEVLTAQGISVQSFNADLLYEPWEVYDELGRPFTMFAAFWERCLSMPYDP---ESPLLPPKKII-SGDVS- 174 (475)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCEEEChhhhcccCCCCCCeecHHHHHHHhccCCC---CCCCCCccccC-CCccc-
Confidence 99999999999999999999999999999999999988999999999999987642211 11122222110 00000
Q ss_pred hhhhccCcCCCcccCCCCcC------CCCCCCCCccHHHHHHHHHHHHH-HhhcccccCCCCCCCCCCcccHhhhcCCcc
Q psy14494 161 LHKIINNNIISLNDLGFCKS------NLSSLGIKTGASGAKILLNNFIK-KIKNYNINRNYPSINGTSYLSIHLRFGTIS 233 (470)
Q Consensus 161 ~~~~~~~~~~~l~~l~~~~~------~~~~~~~~gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS 233 (470)
.+.++.+++... ......|+|||++|+++|+.|++ ++.+|+.+||.|+.++||+|||||+|||||
T Consensus 175 --------~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~Y~~~Rd~p~~~~tS~LSPyL~~G~IS 246 (475)
T TIGR02766 175 --------KCSADDLGFEDDSEKGSNALLARAWSPGWSNADKALTEFINGPLLEYSKNRKKADSATTSLLSPYLHFGEVS 246 (475)
T ss_pred --------cCChhhcCCCCcccccccccccccCCCccHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcccccCccc
Confidence 011112222110 00012389999999999999999 999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh----hhhcccCCcchHHHHHHHHHHHHHHHHHHhCCcccccccchhhccCCCCCchhhhHHHhhhhcC
Q psy14494 234 IRKLVKLIFKFI----KKHYKTDCIGYFTWLSQLIWRDFYQMILYCYPNVVNKSFKKEYDNILWESDNYAKKNFLNWCKG 309 (470)
Q Consensus 234 ~R~v~~~~~~~~----~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~d~~~~~~~~~w~~G 309 (470)
||+|++++.... .+......++.++|++||+|||||++++.++|.+...++++.++.++|++++ +.|++|++|
T Consensus 247 pR~v~~~~~~~~~~~~~~~~~~~~~s~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~~~---~~f~aW~~G 323 (475)
T TIGR02766 247 VRKVFHLVRMKQIAWANEGNSAGEESVNLFLRSIGLREYSRYISFNHPFSHEKPLLGHLKFFPWAVDE---NYFKAWRQG 323 (475)
T ss_pred HHHHHHHHHhhhhhhhhcccCCCcccHHHHHHHHHHHHHHHHHHHhCCcccccchhhhhhcCCCCCCH---HHHHHHHcC
Confidence 999999986311 0110112456778999999999999999999988777888888889999998 899999999
Q ss_pred CCCchHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCccccc
Q psy14494 310 YTGYPLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRIF 389 (470)
Q Consensus 310 ~TG~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~ 389 (470)
+||||+||||||||++|||||||+||||||||||+|+||||.||+||+++|||||+|+|+|||||+||||+|++||||||
T Consensus 324 ~TG~P~VDA~MRqL~~TGwmhnR~Rm~vAsfl~k~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~Ag~g~d~~~~~Rif 403 (475)
T TIGR02766 324 RTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGSLPDGRELDRID 403 (475)
T ss_pred CCCCcchhHHHHHHHHHCCCcHHHHHHHHHHHHcccCCChHHHHHHHHHHccccchhcccccccccccCCCCCCcccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChhhhhhhcCCcchhHHhhccccccCCCccccCccccChHHHHHcCCccCCCCCCCCCChHHHHHHHHHHH
Q psy14494 390 NPIIQSKKFDYQGIFIRKYLPQLSKLSNKYIHSPWKASSYKLEKAGIILGKNYPKPILEHSLSKKNILKRY 460 (470)
Q Consensus 390 np~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~pw~~~~~~~~~~~~~~~~~YP~pivd~~~~~~~~~~~~ 460 (470)
||++|++||||+|+|||+|||||+++|+++||+||+++..+|+++||.+|.+||+|||||+++|++|++++
T Consensus 404 nP~~q~~~~Dp~g~yir~wvPeL~~~p~~~ih~Pw~~~~~~~~~~~~~~g~~YP~PiVd~~~~r~~~~~~~ 474 (475)
T TIGR02766 404 NPQLEGYKFDPNGEYVRRWLPELARLPTEWIHHPWDAPESVLQAAGVELGSNYPLPIVGLDEARARLHEAL 474 (475)
T ss_pred CHHHHHhhcCCCcccHHHhChhhccCCHHHhcCcccCCHHHHHHcCCccCCCCCcccCCHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999975
No 3
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=6.2e-113 Score=888.46 Aligned_cols=434 Identities=30% Similarity=0.597 Sum_probs=374.6
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEc----ChHHHHHHHHHhcCcCEEEEecc
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYA----IASKEIKKLVIKLNIDAVMINHD 77 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g----~~~~~l~~L~~~~~~~~V~~~~~ 77 (470)
+|+||||+||.++..... |.+|++||++||.+|+++|+++|++|+|+.| ++.++|++|+++++|+.|+++++
T Consensus 30 ~vlpvyv~dp~~~~~~~~----~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 30 RVLALFIATPAQWAAHDM----APRQAAFINAQLNALQIALAEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred CEEEEEEECchhhccCCC----CHHHHHHHHHHHHHHHHHHHHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 699999999987765455 9999999999999999999999999999975 79999999999999999999999
Q ss_pred CChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhhcccccCCCCCcccccccccc
Q psy14494 78 YEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNNLVH 157 (470)
Q Consensus 78 ~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (470)
|++++++||++|++.|. +|.++.+++++|++|+.+.+..|++|+|||+|+++|++.+... .+.+.+.|... ..
T Consensus 106 ~~~~~~~rd~~v~~~l~--~i~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~~~~~~~~~~--~p~~~~~p~~~---~~ 178 (472)
T PRK10674 106 YEVNERQRDAAVERALR--NVVCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKNAFLKRLREG--DPECVPAPKVR---SS 178 (472)
T ss_pred cCHHHHHHHHHHHHHcC--CCEEEEecCceEeCccccccCCCCCCCcccHHHHHHHHhhccc--CCccCCCCccc---cc
Confidence 99999999999999995 8999999999999999999999999999999999998865432 11112222110 00
Q ss_pred cchhhhhccCcCCCcccCCCCcCCCCCCCCCccHHHHHHHHHHHHH-HhhcccccCCCCCCCCCCcccHhhhcCCccHHH
Q psy14494 158 SSKLHKIINNNIISLNDLGFCKSNLSSLGIKTGASGAKILLNNFIK-KIKNYNINRNYPSINGTSYLSIHLRFGTISIRK 236 (470)
Q Consensus 158 ~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~R~ 236 (470)
.+ ...+.+..+++.........++|||++|+++|++|++ ++.+|+..||.|+.++||+|||||+|||||||+
T Consensus 179 ~~-------~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~f~~~~l~~Y~~~r~~p~~~~tS~LSPyL~~G~iS~r~ 251 (472)
T PRK10674 179 GA-------IEPLPPIPFNYPQQSFDTALFPVGEKAAIAQLRQFCQQGAGEYEQQRDFPAVDGTSRLSAYLATGVLSPRQ 251 (472)
T ss_pred cc-------cCCCCcccccCcccccccCCCCCCHHHHHHHHHHHHHHHHHHhccccCCCCccCCCCcChhhccCcCCHHH
Confidence 00 0011212222221111123489999999999999999 999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhcccCCcchHHHHHHHHHHHHHHHHHHhCCccccc-ccchhhccCCCCCchhhhHHHhhhhcCCCCchH
Q psy14494 237 LVKLIFKFIKKHYKTDCIGYFTWLSQLIWRDFYQMILYCYPNVVNK-SFKKEYDNILWESDNYAKKNFLNWCKGYTGYPL 315 (470)
Q Consensus 237 v~~~~~~~~~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~-~~~~~~~~~~w~~d~~~~~~~~~w~~G~TG~p~ 315 (470)
|++++.+..... ....+.++|++||+|||||+++++++|++... ++++.++.++|++++ +.|++|++|+|||||
T Consensus 252 v~~~~~~~~~~~--~~~~~~~~fl~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~~w~~~~---~~~~~W~~G~TG~P~ 326 (472)
T PRK10674 252 CLHRLLAEQPQA--LDGGAGSVWLNELIWREFYRHLMVAYPSLCKHRPFIAWTDRVQWQSNP---AHLQAWQQGKTGYPI 326 (472)
T ss_pred HHHHHHHHhhhh--hccCchhHHHHHHHHHHHHHHHHHhCCchhhccCcchhhhccCcccCH---HHHHHHHcCCCCCcc
Confidence 999997643211 11224467999999999999999999998663 666666677899998 899999999999999
Q ss_pred HHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCcccccChhhhh
Q psy14494 316 IDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRIFNPIIQS 395 (470)
Q Consensus 316 vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~np~~q~ 395 (470)
||||||||++|||||||+||+|||||||+|+|||+.|++||+++|||||+|||+|||||+||||+|++||+|||||++|+
T Consensus 327 vDA~mrqL~~tG~mhnr~Rm~vAsfL~k~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~ag~G~d~~py~R~fnP~~q~ 406 (472)
T PRK10674 327 VDAAMRQLNSTGWMHNRLRMITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWAASTGTDAAPYFRIFNPTTQG 406 (472)
T ss_pred HHHHHHHHHHHCCccHHHHHHHHHHHHcCcccCCHhHHHHHHHHhhcCCcccchhccceeecCCCCCCcceeecCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCcchhHHhhccccccCCCccccCccccChHHHHHcCCccCCCCCCCCCChHHHHHHHHHHHHHHH
Q psy14494 396 KKFDYQGIFIRKYLPQLSKLSNKYIHSPWKASSYKLEKAGIILGKNYPKPILEHSLSKKNILKRYNFIK 464 (470)
Q Consensus 396 ~k~Dp~g~yIr~w~PeL~~~p~~~ih~pw~~~~~~~~~~~~~~~~~YP~pivd~~~~~~~~~~~~~~~~ 464 (470)
+||||+|+|||+|||||+++|.++||+||+++.. .|+.+ |||+|||||+++|++|+++|+.++
T Consensus 407 ~k~Dp~g~yIr~w~PeL~~~p~~~ih~Pw~~~~~----~~~~~--~YP~PiVd~~~~r~~~~~~~~~~~ 469 (472)
T PRK10674 407 ERFDRDGEFIRRWLPELRDVPGKAIHQPWRWAEK----AGVTL--DYPQPIVDHKQARLATLAAYEAAR 469 (472)
T ss_pred HHhCCCCChHHHhChhhccCCHHhhcCccccchh----cCCCC--CCCcCCcCHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999732 35544 899999999999999999999865
No 4
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=3.4e-112 Score=882.76 Aligned_cols=439 Identities=34% Similarity=0.623 Sum_probs=381.5
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChH
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQ 81 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~ 81 (470)
||+||||+||+++..... |++|.+||++||.+|+++|+++|++|+|+.|++.++|++|+++++|++|+++++|+++
T Consensus 28 ~vl~vfi~dp~~~~~~~~----~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~p~~vl~~l~~~~~~~~V~~~~~~~~~ 103 (471)
T TIGR03556 28 KVVGLFCLDPNILQADDM----APARVAYLIGCLQELQQRYQQAGSQLLILQGDPVQLIPQLAQQLGAKAVYWNLDVEPY 103 (471)
T ss_pred CEEEEEEEchhhhccccC----CHHHHHHHHHHHHHHHHHHHHCCCCeEEEECCHHHHHHHHHHHcCCCEEEEecccCHH
Confidence 799999999998876556 9999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhhcccccCCCCCcccccccccc-cch
Q psy14494 82 AIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNNLVH-SSK 160 (470)
Q Consensus 82 ~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 160 (470)
+++||++|++.|++.||.++.+.|++|++|+.+.+..|++|+|||+|+|+|.+.... .+.+.|........ .+.
T Consensus 104 ~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~i~~~~~~~y~~ft~f~k~~~~~~~~-----~~~~~p~~~~~~~~~~~~ 178 (471)
T TIGR03556 104 GRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWSSLPKP-----TPVATPTELEGLTEAELE 178 (471)
T ss_pred HHHHHHHHHHHHHHCCCEEEEeCCcEEECccccccCCCCCCcchhHHHHHHHhcccc-----CCCCCccccccCCccccc
Confidence 999999999999999999999999999999999998899999999999999764211 12233322111000 000
Q ss_pred -hhhhccCcCCCcccCCCCcCCCCCCCCCccHHHHHHHHHHHHH-HhhcccccCCCCCCCCCCcccHhhhcCCccHHHHH
Q psy14494 161 -LHKIINNNIISLNDLGFCKSNLSSLGIKTGASGAKILLNNFIK-KIKNYNINRNYPSINGTSYLSIHLRFGTISIRKLV 238 (470)
Q Consensus 161 -~~~~~~~~~~~l~~l~~~~~~~~~~~~~gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~R~v~ 238 (470)
...+....+|.+++++++... ...++|||++|+++|+.|++ ++.+|+.+||.|+.++||+|||||+|||||+|+|+
T Consensus 179 ~~~~~~~~~~p~~~~~~~~~~~--~~~~~gGe~~A~~~L~~f~~~~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~r~v~ 256 (471)
T TIGR03556 179 AAAPLGVIALPTAKDLGFDWDG--DLILEPGETAAQARLEEFCDRAIADYQEQRNFPALDGTSQLSPALKFGVIGIRTVW 256 (471)
T ss_pred cccccccccCCccccccccccc--ccCCCCcHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCCCChhhcCCcccHHHHH
Confidence 000111224555555554321 12489999999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHHhhhhc-ccCCcchHHHHHHHHHHHHHHHHHHhCCcccccccchhhccCCCCCchhhhHHHhhhhcCCCCchHHH
Q psy14494 239 KLIFKFIKKHY-KTDCIGYFTWLSQLIWRDFYQMILYCYPNVVNKSFKKEYDNILWESDNYAKKNFLNWCKGYTGYPLID 317 (470)
Q Consensus 239 ~~~~~~~~~~~-~~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~d~~~~~~~~~w~~G~TG~p~vD 317 (470)
+++.+...... .....+.++|++||+|||||+++++++|++...++++.+..++|+.++ +.|++|++|+||||+||
T Consensus 257 ~~~~~~~~~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~~~---~~~~~W~~G~TG~P~vD 333 (471)
T TIGR03556 257 QATQEAHENSRSEEARNSIRTWQQELAWREFYQHALYHFPELADGPYRSLFQNFPWENNE---AHFQAWCEGRTGYPIVD 333 (471)
T ss_pred HHHHHHHhhcccccccccHHHHHHHHHHHHHHHHHHHHCcchhccccchhhhcCCCcCCH---HHHHHHhcCCCCCCccc
Confidence 99976432110 112346778999999999999999999999888898989999999888 89999999999999999
Q ss_pred HHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCcccccChhhhhhh
Q psy14494 318 SAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRIFNPIIQSKK 397 (470)
Q Consensus 318 A~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~np~~q~~k 397 (470)
||||||++|||||||+||+|||||||+|+|||+.|++||+++|||||+|||+|||||+||||+|++| +|+|||++|++|
T Consensus 334 AaMrqL~~tG~mhnr~Rm~vAsfl~k~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~a~~G~d~~p-~R~fnp~~q~~k 412 (471)
T TIGR03556 334 AAMRQLNETGWMHNRCRMIVASFLTKDLIINWQWGEKYFMQKLIDGDLAANNGGWQWSASSGMDPKP-LRIFNPASQAQK 412 (471)
T ss_pred HHHHHHHHhCCccHHHHHHHHHHHHcccCCCHHHHHHHHHHHhhhcChhhccccccchhcCCCCCCC-CcccCHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999 799999999999
Q ss_pred cCCcchhHHhhccccccCCCccccCccccChHHHHHcCCccCCCCCCCCCChHHHHHHHHHHHHH
Q psy14494 398 FDYQGIFIRKYLPQLSKLSNKYIHSPWKASSYKLEKAGIILGKNYPKPILEHSLSKKNILKRYNF 462 (470)
Q Consensus 398 ~Dp~g~yIr~w~PeL~~~p~~~ih~pw~~~~~~~~~~~~~~~~~YP~pivd~~~~~~~~~~~~~~ 462 (470)
|||+|+|||||||||+++|+++||+||.++ .+++ ..+||+|||||+++|++++++|++
T Consensus 413 ~Dp~G~yIr~w~PeL~~~p~~~ih~p~~~~-~~~~------~~~YP~Pivd~~~~r~~~~~~~~~ 470 (471)
T TIGR03556 413 FDPEAEYIRRWLPELRSVDTKDLVTGKITP-LERR------AVGYPLPIVDHNQQQQLFKQLYQQ 470 (471)
T ss_pred hCCCCchHHHhCHhhccCCHhhhcCcccCc-hhhh------ccCCCCCCCCHHHHHHHHHHHHhh
Confidence 999999999999999999999999998776 3332 237999999999999999999985
No 5
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=100.00 E-value=7.7e-100 Score=785.96 Aligned_cols=390 Identities=24% Similarity=0.469 Sum_probs=327.8
Q ss_pred cEEEEEEecCCCCCc------cccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEe
Q psy14494 2 EVYCVFIFDKNILDP------LRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~------~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~ 75 (470)
+||||||+||+++.. ... |++|.+||++||++|+++|+++|++|+++.|++.++|.+|+++++|++|++|
T Consensus 28 ~vl~vfi~dp~~~~~~~~~~~~~~----~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~G~~~~vl~~L~~~~~~~~V~~~ 103 (429)
T TIGR02765 28 TLIPLYCFDPRQFKLTHFFGFPKT----GPARGKFLLESLKDLRTSLRKLGSDLLVRSGKPEDVLPELIKELGVRTVFLH 103 (429)
T ss_pred eEEEEEEECchHhccccccccCCC----CHHHHHHHHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHhCCCEEEEe
Confidence 699999999988762 234 9999999999999999999999999999999999999999999999999999
Q ss_pred ccCChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhhcccccCCCCCcccccccc
Q psy14494 76 HDYEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNNL 155 (470)
Q Consensus 76 ~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (470)
++|++++++||++|++.|++.||.++.+++++|++|+.+.+..|++|++||+|+++|...+... .+.+.|.....+
T Consensus 104 ~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~v~~~~~~~~~~ft~f~~~~~~~~~~~----~~~~~p~~~~~~ 179 (429)
T TIGR02765 104 QEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQVEAKCSIR----PPLPAPEKLPPL 179 (429)
T ss_pred ccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHhcCCCCCCCCCCchHHHHHHHhhCCCC----CCCCCcccCCCC
Confidence 9999999999999999999999999999999999999999988999999999999987533221 222333221111
Q ss_pred cccchhhhhccCcCCCcccCCCCcCCCC-CCCCCccHHHHHHHHHHHHH--HhhcccccCCCC-CCCCCCcccHhhhcCC
Q psy14494 156 VHSSKLHKIINNNIISLNDLGFCKSNLS-SLGIKTGASGAKILLNNFIK--KIKNYNINRNYP-SINGTSYLSIHLRFGT 231 (470)
Q Consensus 156 ~~~~~~~~~~~~~~~~l~~l~~~~~~~~-~~~~~gGe~~A~~~L~~Fl~--~l~~Y~~~r~~p-~~~~tS~LSpyL~~G~ 231 (470)
+... ....+|+++++++...... ...++|||++|+++|++|+. .+..|+..||.| +.++||+|||||+|||
T Consensus 180 ---~~~~--~~~~~~~l~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~l~~Y~~~R~~~~~~~~tS~LSpyL~~G~ 254 (429)
T TIGR02765 180 ---PSVD--DPGWIPTLEDLGEESSEVDRGLPFVGGETAGLARLKEYFWSKDLKSYKETRNGMLGPDYSTKFSPWLALGC 254 (429)
T ss_pred ---cccc--cccCCCChhhcCCCcccccccCCcCchHHHHHHHHHHHHhhccHhhhhhccCcccCCCCcCccCHHHhCCc
Confidence 1100 0011344554554332111 23489999999999999997 699999999985 5789999999999999
Q ss_pred ccHHHHHHHHHHHhhhhcccCCcchHHHHHHHHHHHHHHHHHHhCCc-ccc-cccchhhccCCCCCchhhhHHHhhhhcC
Q psy14494 232 ISIRKLVKLIFKFIKKHYKTDCIGYFTWLSQLIWRDFYQMILYCYPN-VVN-KSFKKEYDNILWESDNYAKKNFLNWCKG 309 (470)
Q Consensus 232 iS~R~v~~~~~~~~~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~-~~~-~~~~~~~~~~~w~~d~~~~~~~~~w~~G 309 (470)
||||+|++++.+..... ...++...|++||+|||||++++.++|. +.. .++.. ..++|+.|+ +.|++|++|
T Consensus 255 iS~r~v~~~~~~~~~~~--~~~~~~~~~~~eL~WRef~~~~~~~~~~~~~~~~~~~~--~~~~w~~~~---~~~~~W~~G 327 (429)
T TIGR02765 255 VSPRQIYEELQRYETER--GANDSTYWVIFELLWRDYFRFYALKYGNRLFRFGGLRG--KHPKWSFDA---KRFEQWKTG 327 (429)
T ss_pred ccHHHHHHHHHHHHhhc--ccCCCcHHHHHHHHHHHHHHHHHHHcCCcccccCCCcc--CCCCCccCH---HHHHHHhCC
Confidence 99999999997632111 1122333466799999999998888874 332 23322 357899988 899999999
Q ss_pred CCCchHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCccccc
Q psy14494 310 YTGYPLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRIF 389 (470)
Q Consensus 310 ~TG~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~ 389 (470)
+|||||||||||||++|||||||+||+|||||||+|+||||+||+||+++|||||+|+|+|||||+||||+|+.| +|||
T Consensus 328 ~TG~PivDAamrqL~~TG~mhnr~Rm~vAsFl~k~L~idWr~G~~~F~~~LiD~D~a~n~g~Wqw~ag~g~d~~~-~Rif 406 (429)
T TIGR02765 328 TTGYPLVDANMRELNATGFMSNRGRQNVASFLVKDLGLDWRYGAEWFETQLVDYDVCSNWGNWQYLAGVGNDPRG-SRQF 406 (429)
T ss_pred CCCChhhhHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHHhhccchhcCcccchhhhcCcCCCCc-CccC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred ChhhhhhhcCCcchhHHhhcccc
Q psy14494 390 NPIIQSKKFDYQGIFIRKYLPQL 412 (470)
Q Consensus 390 np~~q~~k~Dp~g~yIr~w~PeL 412 (470)
||++|++||||+|+|||||||||
T Consensus 407 np~~q~~k~Dp~g~yir~wvPeL 429 (429)
T TIGR02765 407 NIEKQAQDYDPDGEYVATWVPEL 429 (429)
T ss_pred CHHHHHHhcCCCCCcHHHhcCCC
Confidence 99999999999999999999998
No 6
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite.; InterPro: IPR005101 This entry represents a multi-helical domain composed of two all-alpha subdomains that is found as the C-terminal domain in cryptochrome proteins, as well as at the N-terminal of DNA photolyase where it acts as a FAD-binding domain (the N-terminal of DNA photolyase binds a light-harvesting cofactor). Photolyases and cryptochromes are related flavoproteins that bind FAD. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes (CRY1 and CRY2) are blue light photoreceptors that mediate blue light-induced gene expression [, ]. DNA photolyases are DNA repair enzymes that repair mismatched pyrimidine dimers induced by exposure to ultra-violet light. They bind to UV-damaged DNA containing pyrimidine dimers and, upon absorbing a near-UV photon (300 to 500 nm), they catalyse dimer splitting, breaking the cyclobutane ring joining the two pyrimidines of the dimer so as to split them into the constituent monomers; this process is called photoreactivation. DNA photolyases require two choromophore-cofactors for their activity. All monomers contain a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm [, ].; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 3ZXS_A 1DNP_A 2XRZ_B 2XRY_A 2VTB_A 2J4D_B 2IJG_X 3TVS_A 2E0I_D ....
Probab=100.00 E-value=6e-92 Score=682.81 Aligned_cols=272 Identities=43% Similarity=0.854 Sum_probs=244.4
Q ss_pred ccHHHHHHHHHHHHH-HhhcccccCCCCCCCCCCcccHhhhcCCccHHHHHHHHHHHhhhhcccCCcchHHHHHHHHHHH
Q psy14494 189 TGASGAKILLNNFIK-KIKNYNINRNYPSINGTSYLSIHLRFGTISIRKLVKLIFKFIKKHYKTDCIGYFTWLSQLIWRD 267 (470)
Q Consensus 189 gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~R~v~~~~~~~~~~~~~~~~~~~~~f~~eL~WRe 267 (470)
|||++|+++|++|++ ++..|+..||.|+.++||+|||||+|||||||+|++++.+... ......++.++|++||+|||
T Consensus 1 GGe~~A~~~L~~Fl~~~l~~Y~~~r~~p~~~~~S~LSpyL~~G~lS~r~v~~~~~~~~~-~~~~~~~~~~~f~~eL~WRe 79 (277)
T PF03441_consen 1 GGETAALKRLEEFLKERLADYGEQRDDPAADGTSRLSPYLNFGCLSPREVYRAVKKAQE-ANDAHSESAEKFIRELIWRE 79 (277)
T ss_dssp SSHHHHHHHHHHHHHHCGGGHHHHTT-TTSTTS---HHHHHTTSS-HHHHHHHHHHHHH-CHTCHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHhhchhccCCCcCCcCcccHHHhCCCcCHHHHHHHHHHHhh-hcccccchHHHHHHHHHHHH
Confidence 899999999999999 9999999999999999999999999999999999999988753 10111357889999999999
Q ss_pred HHHHHHHhCCccc-ccccchhhccCCCC---CchhhhHHHhhhhcCCCCchHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q psy14494 268 FYQMILYCYPNVV-NKSFKKEYDNILWE---SDNYAKKNFLNWCKGYTGYPLIDSAIIQLNSSGYMHNRLRMVTASFLIK 343 (470)
Q Consensus 268 f~~~~~~~~p~~~-~~~~~~~~~~~~w~---~d~~~~~~~~~w~~G~TG~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k 343 (470)
|++++++++|++. ..++++.++.++|. .+. +.|++|++|+||+||||||||||++|||||||+||||||||||
T Consensus 80 f~~~~~~~~p~~~~~~~~~~~~~~~~w~~~~~~~---~~~~~w~~G~TG~p~vDAamrqL~~tG~mHn~~R~~vasfl~k 156 (277)
T PF03441_consen 80 FYRQLLYHNPNLDMFENFNPKFRQIPWEDDRENP---ELFEAWCEGRTGYPLVDAAMRQLRQTGWMHNRLRMIVASFLTK 156 (277)
T ss_dssp HHHHHHHHSGGCTCSSTSSTTCCCSHCBTSBSTH---HHHHHHHTT-SS-HHHHHHHHHHHHHS---HHHHHHHHHHHHH
T ss_pred HHHHHHHhCCcchhhhhccHHHHhhhhcccccCH---HHHHHHHcCCCCChHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence 9999999999998 77999999999996 344 8899999999999999999999999999999999999999999
Q ss_pred hcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCcccccChhhhhhhcCCcchhHHhhccccccCCCccccCc
Q psy14494 344 NMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRIFNPIIQSKKFDYQGIFIRKYLPQLSKLSNKYIHSP 423 (470)
Q Consensus 344 ~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~np~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~p 423 (470)
+|+|||+.|++||+++|||||+|+|+|||||+||||+|++||+|+|||++|+++|||+|+|||||||||+++|+++||+|
T Consensus 157 ~l~i~W~~g~~~f~~~liD~d~a~n~~~wqw~ag~g~d~~~~~r~~np~~q~~~~Dp~g~~ir~w~PeL~~~~~~~ih~p 236 (277)
T PF03441_consen 157 DLLIDWREGAEWFAEHLIDYDPASNYGNWQWAAGTGTDAKPYFRIFNPVKQSKKFDPDGEYIRRWVPELADLPDEYIHEP 236 (277)
T ss_dssp TSHBHHHHHHHHHHHHHTT--HHHHHHHHHHHTTSSSTGCSTTTHHHHHHHHHHHSTTSHHHHHHSGGGTTSTHHHHTSC
T ss_pred hccCCccccHHHHHHHhhccCcchHHHHHHHHHhhccccCccccccCchHHHHhhCcHHHHHHHHHHHHhcCChhheeCh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccChHHHHHcCCccCCCCCCCCCChHHHHHHHHHHHHHHH
Q psy14494 424 WKASSYKLEKAGIILGKNYPKPILEHSLSKKNILKRYNFIK 464 (470)
Q Consensus 424 w~~~~~~~~~~~~~~~~~YP~pivd~~~~~~~~~~~~~~~~ 464 (470)
|+++..+|+++||.+|.+||+|||||+++|++|+++|++++
T Consensus 237 ~~~~~~~~~~~~~~~~~~YP~pivd~~~~r~~~~~~~~~~~ 277 (277)
T PF03441_consen 237 WKAPPAVQKAAGCVLGNDYPKPIVDHKEARKRALKRYKAAY 277 (277)
T ss_dssp HGSHHHHHHHCT-CTTTSSBTSSSHHHHHHHHHHHHHHHH-
T ss_pred hccChHHHHHhCCccCCCCCcccCCHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999863
No 7
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=3.4e-87 Score=695.60 Aligned_cols=371 Identities=19% Similarity=0.195 Sum_probs=303.1
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChH
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQ 81 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~ 81 (470)
|||||||+||.++.. |.+|.+||++||.+|+++|+++|++|+|+.|++.++|.+|+++++|++|++|++|+++
T Consensus 54 ~vl~vyi~dp~~~~~-------~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~ 126 (454)
T TIGR00591 54 PLHVCFCLVDFFLAA-------TRRHYFFMLGGLDEVANECERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQ 126 (454)
T ss_pred CEEEEEEeCCCcccc-------cHHHHHHHHHHHHHHHHHHHHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcH
Confidence 699999999988764 8999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhhcccccCCCCCccccccc-ccccch
Q psy14494 82 AIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNN-LVHSSK 160 (470)
Q Consensus 82 ~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 160 (470)
+++||++|++.|++ +|.++.+++++|++++.+.++ .+|++||+|++. ++.+... +.+.+.+..... ....+.
T Consensus 127 ~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~~~~~~--~~y~~ft~~~k~-~~~~~~~---~~~~~~~~~~~~~~~~~~~ 199 (454)
T TIGR00591 127 PEQWDEAVGKLLPK-DVPFQQVDAHNVVPCWAASKK--LEYAARTIRGKI-RKLLPEY---LTEFPRVLKHPSPLDLEAG 199 (454)
T ss_pred HHHHHHHHHHHhcC-CCcEEEECCceEeeCcccCCc--eeeeeecHHHHH-HHhChhh---ccccCCCccCCcccccccC
Confidence 99999999999965 899999999999999888665 699999988775 4432111 111111100000 000000
Q ss_pred hhhhccCcCC-CcccCCCCcCCCCCCCC-CccHHHHHHHHHHHHH-HhhcccccCCCCCCCCCCcccHhhhcCCccHHHH
Q psy14494 161 LHKIINNNII-SLNDLGFCKSNLSSLGI-KTGASGAKILLNNFIK-KIKNYNINRNYPSINGTSYLSIHLRFGTISIRKL 237 (470)
Q Consensus 161 ~~~~~~~~~~-~l~~l~~~~~~~~~~~~-~gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~R~v 237 (470)
....+ .++.+++..+ .....| +|||++|+++|++|++ ++.+|+.+||.|+.++||+|||||+||+||||+|
T Consensus 200 -----~~~~~~~~~~~~~~~~-~~~~~~~~gGe~aA~~~L~~F~~~~l~~Y~~~Rn~p~~~~tS~LSPyL~~G~IS~R~i 273 (454)
T TIGR00591 200 -----PVDWDAVRDSLAVERS-VEEVVWAKPGTTAGLIMLESFIEKRLCFFRTRRNDPNNDALSMLSPWLHFGQLSAQRA 273 (454)
T ss_pred -----cCCHHHHHHhccCcCC-cCCcCCCCCcHHHHHHHHHHHHHHHHHHHHHhcCCcccccccccchHHhcCcccHHHH
Confidence 00000 0111111211 111236 9999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhcccCCcchHHHHHHHHHH-HHHHHHHHhCCcccccccchhhccCCCC--------Cchhhh-HHHhhhh
Q psy14494 238 VKLIFKFIKKHYKTDCIGYFTWLSQLIWR-DFYQMILYCYPNVVNKSFKKEYDNILWE--------SDNYAK-KNFLNWC 307 (470)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~~~~f~~eL~WR-ef~~~~~~~~p~~~~~~~~~~~~~~~w~--------~d~~~~-~~~~~w~ 307 (470)
++++.+.. .....+.+.|++||+|| |||+++++++|++.. +.+. ..|. +|.++. +.|++|+
T Consensus 274 ~~~~~~~~----~~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~--~~~~---~~w~~~~l~~~~~d~r~~~~~~~~W~ 344 (454)
T TIGR00591 274 ARAVERAR----GNAGESVEFFEEELVVRRELADNFCFYNPYYDS--LCGA---YWWARTTLDDHAKDKREHLYSLEQLE 344 (454)
T ss_pred HHHHHHhc----cCCchHHHHHHHHHHHHHHHHhHhhhcCCCccc--cccc---hHHHHHHHHHHhcCCccccCCHHHHH
Confidence 99986532 11123457899999999 899999999999875 2211 1254 333222 5799999
Q ss_pred cCCCCchHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHH--------hccccCCCCCcchhhhhhccC
Q psy14494 308 KGYTGYPLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFAN--------KLNDFDLASNNGNWQWSASSG 379 (470)
Q Consensus 308 ~G~TG~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~--------~LiD~d~a~n~~~wqw~ag~G 379 (470)
+|+|||||||||||||++|||||||+||+|| |+| |||+.|++||++ +|||||+|||+|||||+ |||
T Consensus 345 ~G~Tg~pivdA~MrqL~~TG~MHNr~RMi~a----K~l-i~W~~g~~~f~~~~~~ln~~~lvDgd~a~n~~~wqW~-~~G 418 (454)
T TIGR00591 345 KSTTHDYLWNAAQEQLVTEGKMHGFLRMYWA----KKI-LEWTHSPEEALSIAIYLNDKYILDGRDPNGYVGCMWS-ICG 418 (454)
T ss_pred hcCcCcHhHhHHHHHHHHhCccccceeeeee----eeh-hhcCCCHHHHHHHHHHhhhhhhccCCCCCccceeeeE-ecc
Confidence 9999999999999999999999999999999 999 999999999999 89999999999999999 999
Q ss_pred CCCCCc-----c---cccChhhhhhhcCCcchhHHhh
Q psy14494 380 CSSQPF-----F---RIFNPIIQSKKFDYQGIFIRKY 408 (470)
Q Consensus 380 ~d~~p~-----~---R~~np~~q~~k~Dp~g~yIr~w 408 (470)
+|++|| | |+|||++|++||||+| |||+|
T Consensus 419 ~d~~p~~~~~~fg~iR~~np~~q~~kfd~~~-yi~~~ 454 (454)
T TIGR00591 419 IHDQGWAERIVFGKIRYMNYAGCRRKFNVAY-FERKY 454 (454)
T ss_pred ccCCCCCCCccceeeeecChhhhhccCCHHH-HHhhC
Confidence 999999 8 9999999999999999 99998
No 8
>KOG0133|consensus
Probab=100.00 E-value=3.3e-78 Score=611.62 Aligned_cols=452 Identities=25% Similarity=0.425 Sum_probs=384.2
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChH
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQ 81 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~ 81 (470)
+|+||||+||+....+.. |..+.+||.|+|.+|+++|+++|++|.+++|.|+++|..+.+..+++.|.++.+++|.
T Consensus 32 ~~~~v~i~d~~~~~~~~~----g~~~~~~l~qsL~~ld~sl~~l~~~L~v~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~ 107 (531)
T KOG0133|consen 32 PVRPVFILDPEEAGSSNV----GRNRWRFLLQSLEDLDQSLRELNSRLFVFRGHPIAVLSRLLEQVGVQKLKFEYDMEPD 107 (531)
T ss_pred CceeEEEeCHhHhhcccc----chhHHHHHHHHHHHHHHHHHHhCCceEEEeCCchHHHhhhhhccceeEEEEEEeccCc
Confidence 689999999999888777 9999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccC-CCCCccchHHHHHHHHHhhcccccCCCCCcccccccccccch
Q psy14494 82 AIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKT-GKPYSIFSFYQKKWIEKVKSNKCYLQSYPVKSYLNNLVHSSK 160 (470)
Q Consensus 82 ~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~-g~~~~vft~F~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (470)
.+.||..++..+.+.|+.+....+++++.++.+...+ |++|..|..|+....+. ..+ ..| ..+......+..+.
T Consensus 108 ~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~~~~~~~-~~~---~~p-~~v~~~~~~~~~~~ 182 (531)
T KOG0133|consen 108 GKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTFRGVCQSM-SAP---KIP-ALVLSGLAVEKHPN 182 (531)
T ss_pred cccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCcccccccccccccc-ccc---ccc-ccccccccCCCChh
Confidence 9999999999999999999999999999999887774 78999999998776442 211 111 00100000111111
Q ss_pred hhh--hccCcCCCcccCCCCcCCCCCCCCCccHHHHHHHHHHHHH-H--hhcccccCCCC-C--CCCCCcccHhhhcCCc
Q psy14494 161 LHK--IINNNIISLNDLGFCKSNLSSLGIKTGASGAKILLNNFIK-K--IKNYNINRNYP-S--INGTSYLSIHLRFGTI 232 (470)
Q Consensus 161 ~~~--~~~~~~~~l~~l~~~~~~~~~~~~~gGe~~A~~~L~~Fl~-~--l~~Y~~~r~~p-~--~~~tS~LSpyL~~G~i 232 (470)
... -....+|+++.+++.++......|+||++.|+.+|+.|+. . ..++....+.+ . ..+++.|||||+|||+
T Consensus 183 ~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g~s~al~~l~~~l~~~~~~an~~~~~~~~~~~~~~s~~~Ls~yL~fg~~ 262 (531)
T KOG0133|consen 183 FLANSKASAVVPTLELLRFIPSNYGEVVWRGGESEALKRLDAHLKVPLWVANLELRYSNANSRVKISTTVLSPYLKFGCL 262 (531)
T ss_pred hhhhcccccccCCchhhccCcccccccccCCcccchhHHHHHHhhHHHHHhhhhccccccchhcCCCccccccceeeccc
Confidence 100 0123467788888776555445589999999999999997 4 34444333333 2 3677799999999999
Q ss_pred cHHHHHHHH--HHHhhhhcccCCcchH-HHHHHHHHHHHHHHHHHhCCcccccccchhhccCCCCCchhhhHHHhhhhcC
Q psy14494 233 SIRKLVKLI--FKFIKKHYKTDCIGYF-TWLSQLIWRDFYQMILYCYPNVVNKSFKKEYDNILWESDNYAKKNFLNWCKG 309 (470)
Q Consensus 233 S~R~v~~~~--~~~~~~~~~~~~~~~~-~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~d~~~~~~~~~w~~G 309 (470)
|+|.+++.. .+...+. ...+.+.+ .|+.||+||||+|+...++|..+.+.++....+++|+.|+ ..+++|.+|
T Consensus 263 svr~~~~~~~~k~V~~~~-~~~s~~~es~~~~qv~Wre~~y~~~~n~p~~~~m~~n~~~~~ipw~~n~---~~~~aw~~G 338 (531)
T KOG0133|consen 263 SVRYFYRCVRLKQVKWKA-KKNSLPPESLFLGQVAWREFFYTAAFNTPYFDDMPGNKILLQIPWDKNP---PKLAAWLEG 338 (531)
T ss_pred eeEeehhHhHHHHHHHhh-hcccCCccccccceeeeechhhHhhcCCccccccccccccccCCcccCh---hhhHHHHcC
Confidence 999999632 2221111 11122334 4999999999999999999998888999999999999988 889999999
Q ss_pred CCCchHHHHHHHHHHHhcCCchHHHHHHHHHHHH-hcCCCChHHHHHHHHhccccCCCCCcchhhhhhccCCCCCCcccc
Q psy14494 310 YTGYPLIDSAIIQLNSSGYMHNRLRMVTASFLIK-NMGINWKWGENYFANKLNDFDLASNNGNWQWSASSGCSSQPFFRI 388 (470)
Q Consensus 310 ~TG~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k-~L~idW~~g~~~F~~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~ 388 (470)
+||||+|||+||||++||||||+.|+++|||+|| .|+|+|++|.++|+++|+|+|...|.|||||++|++.+..+|+|+
T Consensus 339 ~tG~P~ida~m~~l~~~gw~h~~~R~~vasf~tr~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ 418 (531)
T KOG0133|consen 339 LTGYPWLDAGMRQLLASGWEHHRSRTIVASFLTRGDLLISWREGLDVFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRV 418 (531)
T ss_pred CCCCCchhHHHHHHHHHHHHhcccchhhHhHhhccceeeeHHHHHHHHHHHhcchhhhcCCCccceeccccccccccccc
Confidence 9999999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred cChhhhhhhcCCcchhHHhhccccccCCCccccCccccChHHHHHcCCccCCCCCCCCCChHHHHHHHHHHHHHHHHH
Q psy14494 389 FNPIIQSKKFDYQGIFIRKYLPQLSKLSNKYIHSPWKASSYKLEKAGIILGKNYPKPILEHSLSKKNILKRYNFIKNI 466 (470)
Q Consensus 389 ~np~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~pw~~~~~~~~~~~~~~~~~YP~pivd~~~~~~~~~~~~~~~~~~ 466 (470)
+||+.+++++||+|.|||+|+|||++.|..+||+||.++..+|++++|.+|.+||+|||+|+.+++..++++..+.+.
T Consensus 419 ysp~~~~kk~dP~g~yir~~lp~l~~~p~~~i~~pW~~p~~~~~~~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~ 496 (531)
T KOG0133|consen 419 YSPVALGKKLDPDGLYIRQWLPELRSGPMHFIYEPWAAPEGVQTAAGELLGVDYPKPIVKLASAAKRNMEAMGCMWSI 496 (531)
T ss_pred cCHHHHhCcCCcchhhHHHHhHHHhcCCcceeccCCCCcHHHhhhhhhhhhcccchhhhhhHHhhHhHHHHHHHHHhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999987764
No 9
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=100.00 E-value=1.1e-33 Score=272.17 Aligned_cols=349 Identities=16% Similarity=0.218 Sum_probs=265.9
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcCh---HHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEE
Q psy14494 24 EDRRIEFIFKSIIELSINLQNYDSDLIIRYAIA---SKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKF 100 (470)
Q Consensus 24 ~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~---~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~ 100 (470)
+..++-+++.+|+++.++|+..|.++....-++ ...|...++.++.+.|++.+ |.+......++...-..||++
T Consensus 44 HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~~~~~~~~~~l~~~l~~~~~d~~~~~~---p~~~~l~~~m~~L~~~~g~~i 120 (505)
T COG3046 44 HKQKLVLVFAAMRHFADELRAEGLKVRYERADDNSFGGELRRALEAYPGDRVQVQE---PGDHRLEARMKSLSMALGIEI 120 (505)
T ss_pred chhhhHHHHHHHHHHHHHHhhCCceeEEEEcCCcccchHHHHHHHhcCCCeEEEec---CcchhHHHHHHhhhhhcCcee
Confidence 667888999999999999999999988776544 56788888999999999985 444455555555544569999
Q ss_pred EEEeC-ceeEcCCcccccCC-CCCccchHHHHHHHHHhhcccccCCC------------CCcccccccccccchhhhhcc
Q psy14494 101 FSYKD-QVIFEKNEILNKTG-KPYSIFSFYQKKWIEKVKSNKCYLQS------------YPVKSYLNNLVHSSKLHKIIN 166 (470)
Q Consensus 101 ~~~~~-~~L~~p~~i~~~~g-~~~~vft~F~k~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~ 166 (470)
..+++ ++|.++.++....+ ..+-.+.+||+..+++....|..-.| .+.|+.. .+ |+.+.+.+
T Consensus 121 ~~~~~~~Fl~s~a~f~~w~~~~k~~lme~FYr~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~pdL--~~--P~pl~fpp 196 (505)
T COG3046 121 TEVENPHFLCSRAEFDAWAGDRKPLLMESFYRRMRKRTGILMEDDQPEGGRWNFDAENRKKLPPDL--LP--PKPLKFPP 196 (505)
T ss_pred EEecCcceecCHHHhhhhhccCcchhhHHHHHHHHHhhceeccCCCCCCCcCCcCcccccCCCCcC--CC--CCCCCCCC
Confidence 99987 59999998877653 45568999999999987766532111 0111000 00 11000000
Q ss_pred Cc-----CCCcccCCCCc--CCCCCCCCCccHHHHHHHHHHHHH-HhhcccccCCCCCC----CCCCcccHhhhcCCccH
Q psy14494 167 NN-----IISLNDLGFCK--SNLSSLGIKTGASGAKILLNNFIK-KIKNYNINRNYPSI----NGTSYLSIHLRFGTISI 234 (470)
Q Consensus 167 ~~-----~~~l~~l~~~~--~~~~~~~~~gGe~~A~~~L~~Fl~-~l~~Y~~~r~~p~~----~~tS~LSpyL~~G~iS~ 234 (470)
.+ +..++.+ |++ +.+..+.|+.++++|.+.|++|++ +|.+|+..+|.+.. -.+|.|||||+.|.|+|
T Consensus 197 d~~vq~v~e~Ve~~-f~~~~G~~e~F~wpvtr~~A~~~L~~Fi~~~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~P 275 (505)
T COG3046 197 DEIVQEVKERVERL-FPDNFGQVEGFGWPVTRTQALRALKHFIADRLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTP 275 (505)
T ss_pred cchhHHHHHHHHhh-CCCCCCccccCCCCCCHHHHHHHHHHHHHHhhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCH
Confidence 00 0011111 222 344567899999999999999999 99999999987643 37999999999999999
Q ss_pred HHHHHHHHHHhhhhcccCCcchHHHHHHHH-HHHHHHHHHHhC-CcccccccchhhccCCCCCchhhhHHHhhhhcCCCC
Q psy14494 235 RKLVKLIFKFIKKHYKTDCIGYFTWLSQLI-WRDFYQMILYCY-PNVVNKSFKKEYDNILWESDNYAKKNFLNWCKGYTG 312 (470)
Q Consensus 235 R~v~~~~~~~~~~~~~~~~~~~~~f~~eL~-WRef~~~~~~~~-p~~~~~~~~~~~~~~~w~~d~~~~~~~~~w~~G~TG 312 (470)
++|+.++.+++... ..+.+++|+|++|++ ||||++.+++.. |++.+.++..+-.. +.....+|+|+
T Consensus 276 leVi~Aa~~Ay~~g-~ipLN~VEGFvRQiiGWREfmRgiY~~~~P~y~trN~f~~d~~-----------Lp~~yw~g~T~ 343 (505)
T COG3046 276 LEVIRAALKAYREG-DIPLNSVEGFVRQIIGWREFMRGIYWLKMPDYATRNFFNADRK-----------LPPFYWTGQTK 343 (505)
T ss_pred HHHHHHHHHhhccC-CCchHHHHHHHHHHhhHHHHHHHhhhhcCCchhhhhhhccCCC-----------CCCccccCCcC
Confidence 99999999875432 234678999999999 999999999876 99987766444333 33446679999
Q ss_pred chHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhcccc----CCCCCcchhhhhhccC-CCCCCccc
Q psy14494 313 YPLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKLNDF----DLASNNGNWQWSASSG-CSSQPFFR 387 (470)
Q Consensus 313 ~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~LiD~----d~a~n~~~wqw~ag~G-~d~~p~~R 387 (470)
+.|++-++++...+||.||+.|.||.|.|...+++|+....+||+..+||+ ..||.+||-|++.| | +.++||.-
T Consensus 344 M~cl~~av~~v~d~gYAHHIqRLMV~gNfALl~G~dPd~v~~Wf~~~fiDAYdWV~~PNv~GM~qFADG-G~iatKPYas 422 (505)
T COG3046 344 MACLAIAVGRVLDHGYAHHIQRLMVTGNFALLLGVDPDAVDRWFMEVFIDAYDWVELPNVRGMSQFADG-GLIATKPYAS 422 (505)
T ss_pred chHHHHHHHHHhhhhHHHHHHHHHHHhhHHHHhCCCHHHHHHHHHHHHhhHhhheecccccchhhcccC-ceeecCcccc
Confidence 999999999999999999999999999999999999999999999999996 47999999999998 5 46899976
Q ss_pred ccChhh
Q psy14494 388 IFNPII 393 (470)
Q Consensus 388 ~~np~~ 393 (470)
.=|-|.
T Consensus 423 S~nYIn 428 (505)
T COG3046 423 SGNYIN 428 (505)
T ss_pred chhHHH
Confidence 555553
No 10
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=99.93 E-value=3.7e-26 Score=205.86 Aligned_cols=133 Identities=28% Similarity=0.523 Sum_probs=116.3
Q ss_pred CcEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCCh
Q psy14494 1 MEVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEP 80 (470)
Q Consensus 1 ~~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~ 80 (470)
.+|+||||+||........ |++|.+|+++||.+|+++|+++|++|+++.|++.++|.+|+++++|++|+++++|++
T Consensus 25 ~~v~~vfv~d~~~~~~~~~----~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~ 100 (165)
T PF00875_consen 25 DPVLPVFVFDPEEFHPYRI----GPRRRRFLLESLADLQESLRKLGIPLLVLRGDPEEVLPELAKEYGATAVYFNEEYTP 100 (165)
T ss_dssp SEEEEEEEE-HHGGTTCSS----CHHHHHHHHHHHHHHHHHHHHTTS-EEEEESSHHHHHHHHHHHHTESEEEEE---SH
T ss_pred CCeEEEEEecccccccccC----cchHHHHHHHHHHHHHHHHHhcCcceEEEecchHHHHHHHHHhcCcCeeEeccccCH
Confidence 3799999999983322234 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcccccCCCCCccchHHHHHHHHHhh
Q psy14494 81 QAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEILNKTGKPYSIFSFYQKKWIEKVK 137 (470)
Q Consensus 81 ~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i~~~~g~~~~vft~F~k~~~~~~~ 137 (470)
++++||++|++.|++.||.++.+++++|++|+.+.+..|++|+|||||+|+|++.+.
T Consensus 101 ~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~~~~~ 157 (165)
T PF00875_consen 101 YERRRDERVRKALKKHGIKVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWEKQLL 157 (165)
T ss_dssp HHHHHHHHHHHHHHHTTSEEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHHCHCS
T ss_pred HHHHHHHHHHHHHHhcceEEEEECCcEEEeccccccCCCCCcccHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999988754
No 11
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=98.12 E-value=1e-05 Score=75.90 Aligned_cols=114 Identities=9% Similarity=0.154 Sum_probs=78.9
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCcEEEEEc-------ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHc
Q psy14494 24 EDRRIEFIFKSIIELSINLQNYDSDLIIRYA-------IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVI 96 (470)
Q Consensus 24 ~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g-------~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~ 96 (470)
+..|+.+++.||+++.++|++.|..+.++.- +..+.|..++++++++.|.+. +|.+...++.++++|++.
T Consensus 40 HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~---~P~d~~l~~~l~~~~~~~ 116 (224)
T PF04244_consen 40 HKQKLVLFFSAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVM---EPGDYRLEQRLESLAQQL 116 (224)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE-----S-HHHHHHHHH----S
T ss_pred cHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEE---CCCCHHHHHHHHhhhccc
Confidence 7889999999999999999999999988853 346889999999999999987 588888899999999999
Q ss_pred CcEEEEEeC-ceeEcCCcccccC-CCCCccchHHHHHHHHHhhccc
Q psy14494 97 GCKFFSYKD-QVIFEKNEILNKT-GKPYSIFSFYQKKWIEKVKSNK 140 (470)
Q Consensus 97 ~v~~~~~~~-~~L~~p~~i~~~~-g~~~~vft~F~k~~~~~~~~~~ 140 (470)
||++..+++ +.|.++.++.... |+..-.+..||+..++++.+.|
T Consensus 117 ~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~FYR~mRkr~~ILm 162 (224)
T PF04244_consen 117 GIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEYFYREMRKRFGILM 162 (224)
T ss_dssp SS-EEEE--TTSSS-HHHHHHHHTT-SS--HHHHHHHHHHHHTTTE
T ss_pred CCceEEeCCCCccCCHHHHHHHHccCCceeHHHHHHHHHHHcCccc
Confidence 999999987 4777777766543 4455579999999999988775
No 12
>KOG0133|consensus
Probab=92.66 E-value=0.023 Score=59.40 Aligned_cols=180 Identities=13% Similarity=0.000 Sum_probs=119.8
Q ss_pred ccHHHHHHHHH---HHHH-HhhcccccCCCCC-CCCCCccc--HhhhcCCccHHHHHHHHHHHhhhhcccCCcchHHHH-
Q psy14494 189 TGASGAKILLN---NFIK-KIKNYNINRNYPS-INGTSYLS--IHLRFGTISIRKLVKLIFKFIKKHYKTDCIGYFTWL- 260 (470)
Q Consensus 189 gGe~~A~~~L~---~Fl~-~l~~Y~~~r~~p~-~~~tS~LS--pyL~~G~iS~R~v~~~~~~~~~~~~~~~~~~~~~f~- 260 (470)
.++.+|-.... .+.. .+..+...+|.+. ..+.+.++ |+|.+|+++.++.-+...... ..+..|+
T Consensus 300 ~~y~~~~n~p~~~~m~~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R--------~~vasf~t 371 (531)
T KOG0133|consen 300 FFYTAAFNTPYFDDMPGNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSR--------TIVASFLT 371 (531)
T ss_pred hhhHhhcCCccccccccccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccc--------hhhHhHhh
Confidence 34455544443 2223 4566777776554 45788888 999999999988887765431 2233443
Q ss_pred --HHHH-HHHHHHHHHHhCCcccccccchhhccCC---CCCchhhh-HHHhhhhcCCCCchHHHHHHHHHHHhcCCchHH
Q psy14494 261 --SQLI-WRDFYQMILYCYPNVVNKSFKKEYDNIL---WESDNYAK-KNFLNWCKGYTGYPLIDSAIIQLNSSGYMHNRL 333 (470)
Q Consensus 261 --~eL~-WRef~~~~~~~~p~~~~~~~~~~~~~~~---w~~d~~~~-~~~~~w~~G~TG~p~vDA~mrqL~~tG~mhnr~ 333 (470)
..++ |||-..+++.+-.+.+...-...|.-+. -..+++++ +.......+-|-..++++..-+....|=|| .+
T Consensus 372 r~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~~p~~-~i 450 (531)
T KOG0133|consen 372 RGDLLISWREGLDVFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRSGPMH-FI 450 (531)
T ss_pred ccceeeeHHHHHHHHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhcCCcc-ee
Confidence 3455 9999999999988876542222222111 01223333 557777788899999999999999999999 99
Q ss_pred HHHHHHHHHHhcCCCChHHHHH---HH----HhccccCCCCCcchhhhhhccCCCC
Q psy14494 334 RMVTASFLIKNMGINWKWGENY---FA----NKLNDFDLASNNGNWQWSASSGCSS 382 (470)
Q Consensus 334 Rm~~asfl~k~L~idW~~g~~~---F~----~~LiD~d~a~n~~~wqw~ag~G~d~ 382 (470)
+|.|+ +.+++-|..++.- |- .+-.|+..++-+++-+|+.+ +..+
T Consensus 451 ~~pW~----~p~~~~~~~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~~-~~~~ 501 (531)
T KOG0133|consen 451 YEPWA----APEGVQTAAGELLGVDYPKPIVKLASAAKRNMEAMGCMWSIG-AVHD 501 (531)
T ss_pred ccCCC----CcHHHhhhhhhhhhcccchhhhhhHHhhHhHHHHHHHHHhhc-cccc
Confidence 99999 8786666656442 22 22355668899999999986 3443
No 13
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=79.60 E-value=14 Score=37.46 Aligned_cols=59 Identities=14% Similarity=0.173 Sum_probs=47.4
Q ss_pred CCCcEEEEE----------cChHHHHHHHHHhcCcCEEEEeccCChHH-HHHHHHHHHHHHHcCcEEEEE
Q psy14494 45 YDSDLIIRY----------AIASKEIKKLVIKLNIDAVMINHDYEPQA-IIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 45 ~G~~L~v~~----------g~~~~~l~~L~~~~~~~~V~~~~~~~~~~-~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.|++..... |++.+.|.+.+++.+++.|+...+|.|.. ...-+-++..|...||.+..-
T Consensus 80 ~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 (357)
T PRK12652 80 SSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEEA 149 (357)
T ss_pred CCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceecC
Confidence 477754433 89999999999999999999999998875 355566777888889888763
No 14
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=74.16 E-value=16 Score=34.34 Aligned_cols=70 Identities=14% Similarity=0.106 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEE--cC---hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRY--AI---ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFF 101 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~--g~---~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~ 101 (470)
.|-...+..++.+-+.+|+||+... |. -.+.|.+.+++.+++.|++-.-...+.+.|.+++ |++.|++..
T Consensus 41 ~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~v---c~~~gl~~~ 115 (222)
T TIGR00289 41 MFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAIESNYQKSRIDKV---CRELGLKSI 115 (222)
T ss_pred ccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHH---HHHcCCEEe
Confidence 3434466777788889999998764 32 2334545556679999999876666666665555 555587654
No 15
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=72.88 E-value=23 Score=30.61 Aligned_cols=67 Identities=9% Similarity=0.158 Sum_probs=46.7
Q ss_pred hcCCCcEEEEEcChHHHHHHHHHhc--CcCEEEEec-cCChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCc
Q psy14494 43 QNYDSDLIIRYAIASKEIKKLVIKL--NIDAVMINH-DYEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNE 113 (470)
Q Consensus 43 ~~~G~~L~v~~g~~~~~l~~L~~~~--~~~~V~~~~-~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~ 113 (470)
+++|..+.++..+.+..|.+.+++. .++.|+.|. .|+... -++.++++..++++.+++-..++..++
T Consensus 38 ~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS----iAl~DAl~~~~~P~vEVHiSNi~aRE~ 107 (141)
T TIGR01088 38 AQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTS----VALRDALAAVSLPVVEVHLSNVHAREE 107 (141)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhH----HHHHHHHHcCCCCEEEEEcCCcccccc
Confidence 3568999999888887776666654 367888884 233333 345666777799999998766665544
No 16
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=72.71 E-value=20 Score=32.86 Aligned_cols=86 Identities=14% Similarity=0.099 Sum_probs=51.1
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEE--cC---h----HHHHHHHHHhcCcCEE
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRY--AI---A----SKEIKKLVIKLNIDAV 72 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~--g~---~----~~~l~~L~~~~~~~~V 72 (470)
.|+++++..|..... ..|-...+..++...+.+|+|+++.. ++ - .+.|.++.++ +++.|
T Consensus 25 ~v~~l~~~~~~~~~~-----------~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~v 92 (194)
T cd01994 25 EVVALLNLTPEEGSS-----------MMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAV 92 (194)
T ss_pred EEEEEEEEecCCCCc-----------ccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEE
Confidence 367777776543211 11222356677777788999998875 21 1 1334555555 68888
Q ss_pred EEeccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 73 MINHDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 73 ~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
++-.-..-+.+.|.+++ |.+.|++...
T Consensus 93 v~G~i~sd~~~~~~e~~---~~~~gl~~~~ 119 (194)
T cd01994 93 VFGAILSEYQRTRVERV---CERLGLEPLA 119 (194)
T ss_pred EECccccHHHHHHHHHH---HHHcCCEEEe
Confidence 87765556656655544 5555876643
No 17
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=72.66 E-value=39 Score=27.81 Aligned_cols=72 Identities=6% Similarity=-0.039 Sum_probs=47.1
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEE---EcChHHHHHHHHHhcCcCEEEEecc
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIR---YAIASKEIKKLVIKLNIDAVMINHD 77 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~---~g~~~~~l~~L~~~~~~~~V~~~~~ 77 (470)
+|..++++++..-..... ......-..+.+..+.+.+++.|++.... .|++.+.|.+++++.+++-|++-..
T Consensus 29 ~v~ll~v~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 29 EIIPLNVIEVPNHSSPSQ----LEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWH 103 (132)
T ss_pred eEEEEEEEecCCCCCcch----hHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecC
Confidence 467788887632111000 11223345567777777788888875533 4788899999999999998888754
No 18
>COG1087 GalE UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]
Probab=70.89 E-value=2.4 Score=41.47 Aligned_cols=78 Identities=18% Similarity=0.141 Sum_probs=48.1
Q ss_pred HhccccCCCCCcchhhhhhccCCCCCCcccccChhhhhhhcCCcchhHHhhccccccCCCccccCccccChHHHHHcCC-
Q psy14494 358 NKLNDFDLASNNGNWQWSASSGCSSQPFFRIFNPIIQSKKFDYQGIFIRKYLPQLSKLSNKYIHSPWKASSYKLEKAGI- 436 (470)
Q Consensus 358 ~~LiD~d~a~n~~~wqw~ag~G~d~~p~~R~~np~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~pw~~~~~~~~~~~~- 436 (470)
+.|-|+..+.. |++++ .|+|||... ||+|..=....|| .+ ..|...|...|-
T Consensus 151 ~iL~d~~~a~~---~~~v~---------LRYFN~aGA----~~~G~iGe~~~~~-th----------Lip~~~q~A~G~r 203 (329)
T COG1087 151 EILRDAAKANP---FKVVI---------LRYFNVAGA----CPDGTLGQRYPGA-TL----------LIPVAAEAALGKR 203 (329)
T ss_pred HHHHHHHHhCC---CcEEE---------EEecccccC----CCCCccCCCCCCc-ch----------HHHHHHHHHhcCC
Confidence 34455554443 77665 799999988 7776543333333 22 233333444442
Q ss_pred ----ccCCCCCCC----------CCChHHHHHHHHHHHHH
Q psy14494 437 ----ILGKNYPKP----------ILEHSLSKKNILKRYNF 462 (470)
Q Consensus 437 ----~~~~~YP~p----------ivd~~~~~~~~~~~~~~ 462 (470)
+.|.|||-| ++|...+.-.|++..++
T Consensus 204 ~~l~ifG~DY~T~DGT~iRDYIHV~DLA~aH~~Al~~L~~ 243 (329)
T COG1087 204 DKLFIFGDDYDTKDGTCIRDYIHVDDLADAHVLALKYLKE 243 (329)
T ss_pred ceeEEeCCCCCCCCCCeeeeeeehhHHHHHHHHHHHHHHh
Confidence 468999988 36888888888887765
No 19
>PRK09982 universal stress protein UspD; Provisional
Probab=69.75 E-value=61 Score=27.62 Aligned_cols=70 Identities=11% Similarity=0.132 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
+.|+++.+++...+....+..|+|.+.|.+.+++.+++-|++-..-....+-. -.-.+.++...|++..+
T Consensus 68 ~~l~~~~~~~~~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~~~~~~~~~-~va~~V~~~s~~pVLvv 137 (142)
T PRK09982 68 NKLYKLTKNIQWPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHHHSFINRLM-PAYRGMINKMSADLLIV 137 (142)
T ss_pred HHHHHHHHhcCCCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCChhHHHHHH-HHHHHHHhcCCCCEEEe
Confidence 34555555555455677888999999999999999999999875421111222 23334455556766554
No 20
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=67.07 E-value=26 Score=28.05 Aligned_cols=68 Identities=21% Similarity=0.189 Sum_probs=47.4
Q ss_pred HHHHHHHHhcCCCcEEEE---EcChHH--HHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCc
Q psy14494 35 IIELSINLQNYDSDLIIR---YAIASK--EIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQ 106 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~---~g~~~~--~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~ 106 (470)
...+++.+++.|..+.+. .|.... .|+..+++ ++.|++-.++-.. ..-..+++.|++.++++....+.
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~~vsH--~~~~~vk~~akk~~ip~~~~~~~ 84 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTDYVSH--NAMWKVKKAAKKYGIPIIYSRSR 84 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeCCcCh--HHHHHHHHHHHHcCCcEEEECCC
Confidence 467788889999999998 333333 37776664 7778777665443 33456788899999999887543
No 21
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=65.36 E-value=61 Score=26.06 Aligned_cols=71 Identities=11% Similarity=0.038 Sum_probs=46.0
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEE--EEEcChHHHHHHHHHhcCcCEEEEec
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLI--IRYAIASKEIKKLVIKLNIDAVMINH 76 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~--v~~g~~~~~l~~L~~~~~~~~V~~~~ 76 (470)
++..++|.++........ ......-..+.|.++...+...|+++. +..|++.+.|.+.+++.+++.|+...
T Consensus 29 ~i~~l~v~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~ 101 (130)
T cd00293 29 ELVLLHVVDPPPSSAAEL----AELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGS 101 (130)
T ss_pred EEEEEEEecCCCCcchhH----HHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcC
Confidence 466777776532210000 112233345677777777766787764 45688889999999999999988864
No 22
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=65.10 E-value=30 Score=31.35 Aligned_cols=45 Identities=16% Similarity=0.129 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEe
Q psy14494 31 IFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~ 75 (470)
+...+.++=+.|++.|.++.|..+.+...+..+++..+++.++.+
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 455667777778899999999999999999999999999888765
No 23
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=65.08 E-value=42 Score=31.59 Aligned_cols=65 Identities=20% Similarity=0.269 Sum_probs=43.4
Q ss_pred HHHHHHHHHhcCCCcEEEEE--c---ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEE
Q psy14494 34 SIIELSINLQNYDSDLIIRY--A---IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFF 101 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~--g---~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~ 101 (470)
.+.-++.+-+.+|+||+... + +-.+.|.++.++.+++.|++-.-...+.+.|.+++ |++.|++..
T Consensus 46 ~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~v---~~~lgl~~~ 115 (223)
T TIGR00290 46 NAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLDVEAVVFGAIYSEYQKTRIERV---CRELGLKSF 115 (223)
T ss_pred CHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcCCCEEEECCcccHHHHHHHHHH---HHhcCCEEe
Confidence 45555666678899997643 2 24456666677779999999876666666665555 555577654
No 24
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=63.12 E-value=30 Score=35.57 Aligned_cols=67 Identities=15% Similarity=0.094 Sum_probs=52.7
Q ss_pred HHHHHHHHHhcCCCcEEEEEc--ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 34 SIIELSINLQNYDSDLIIRYA--IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g--~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
=|..+.+++.++|+++++... ++.+.+.+++.+.+.+.|+-......+|... .+.|++.|+++.+-+
T Consensus 66 ~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEIgl----n~~Le~~G~ev~ETD 134 (459)
T COG1139 66 YLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEIGL----NHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHhhh----HHHHHHcCCeEEEcc
Confidence 455677788899999999854 4667899999999999999999887776654 556667799887654
No 25
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=61.61 E-value=92 Score=26.29 Aligned_cols=46 Identities=9% Similarity=0.062 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhcCCCcE--EEEEc-ChHHHHHHHHHhcCcCEEEEecc
Q psy14494 32 FKSIIELSINLQNYDSDL--IIRYA-IASKEIKKLVIKLNIDAVMINHD 77 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L--~v~~g-~~~~~l~~L~~~~~~~~V~~~~~ 77 (470)
.+.|+.+.+.+++.|.+. .+..| ++.+.|.+.+++.+++.|++-..
T Consensus 64 ~~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 64 KELLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred HHHHHHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEecc
Confidence 344555555565566543 44455 89999999999999999888643
No 26
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=60.40 E-value=18 Score=35.91 Aligned_cols=14 Identities=21% Similarity=0.273 Sum_probs=10.6
Q ss_pred ccHHHHHHHHHHHH
Q psy14494 189 TGASGAKILLNNFI 202 (470)
Q Consensus 189 gGe~~A~~~L~~Fl 202 (470)
.|...|.+.++.|-
T Consensus 231 iG~k~A~~li~~~~ 244 (316)
T cd00128 231 IGPVTALKLIKKYG 244 (316)
T ss_pred ccHHHHHHHHHHcC
Confidence 58888888877763
No 27
>PRK15005 universal stress protein F; Provisional
Probab=59.14 E-value=76 Score=26.69 Aligned_cols=45 Identities=13% Similarity=0.189 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhcCCC--cEEEEEcChHHHHHHHHHhcCcCEEEEecc
Q psy14494 33 KSIIELSINLQNYDS--DLIIRYAIASKEIKKLVIKLNIDAVMINHD 77 (470)
Q Consensus 33 esL~~L~~~L~~~G~--~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~ 77 (470)
+.|.++.+.+...|. ..++..|++.+.|.+.+++.+++-|++-..
T Consensus 70 ~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 70 SQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence 455555555554443 567778999999999999999999888644
No 28
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=58.87 E-value=21 Score=32.48 Aligned_cols=40 Identities=13% Similarity=-0.012 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCE
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDA 71 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~ 71 (470)
...+.++=++|++.|+++.++.|+.......+++..|+..
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~ 168 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFD 168 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCS
T ss_pred hhhhhhhhhhhhccCcceeeeecccccccccccccccccc
Confidence 4456677777888999999999999999999999999955
No 29
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=58.57 E-value=30 Score=34.74 Aligned_cols=15 Identities=20% Similarity=0.142 Sum_probs=11.2
Q ss_pred CccHHHHHHHHHHHH
Q psy14494 188 KTGASGAKILLNNFI 202 (470)
Q Consensus 188 ~gGe~~A~~~L~~Fl 202 (470)
-.|...|.+.++.|-
T Consensus 243 GIG~ktA~kli~~~g 257 (338)
T TIGR03674 243 GIGPKTALKLIKEHG 257 (338)
T ss_pred CccHHHHHHHHHHcC
Confidence 358888888887764
No 30
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=58.09 E-value=1.2e+02 Score=26.15 Aligned_cols=68 Identities=12% Similarity=0.181 Sum_probs=47.1
Q ss_pred HhcCCCcEEEEEcChHHHHHHHHHhc--CcCEEEEecc-CChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCc
Q psy14494 42 LQNYDSDLIIRYAIASKEIKKLVIKL--NIDAVMINHD-YEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNE 113 (470)
Q Consensus 42 L~~~G~~L~v~~g~~~~~l~~L~~~~--~~~~V~~~~~-~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~ 113 (470)
-+++|+.+.++..+.+..|.+.+++. +++.|+.|.. |+. ---++.++++..++++.+++-..++..++
T Consensus 37 a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~TH----tSvAi~DAl~~~~~P~VEVHiSNi~aRE~ 107 (140)
T cd00466 37 AAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTH----TSIALRDALAAVSIPVIEVHISNIHAREE 107 (140)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHH----HHHHHHHHHHcCCCCEEEEecCCcccccc
Confidence 34569999999888877666665553 4678999842 322 23456777777799999998776665554
No 31
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=57.68 E-value=1.3e+02 Score=26.23 Aligned_cols=67 Identities=13% Similarity=0.195 Sum_probs=47.1
Q ss_pred hcCCCcEEEEEcChHHHHHHHHHhc--CcCEEEEecc-CChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCc
Q psy14494 43 QNYDSDLIIRYAIASKEIKKLVIKL--NIDAVMINHD-YEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNE 113 (470)
Q Consensus 43 ~~~G~~L~v~~g~~~~~l~~L~~~~--~~~~V~~~~~-~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~ 113 (470)
+++|+.+.++..+.+..|.+.+++. +++.|+.|.. |+.. --++.++++..++++.+++-..++.+++
T Consensus 40 ~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THt----SiAl~DAl~~~~~P~VEVHiSNi~aRE~ 109 (146)
T PRK05395 40 AELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHT----SVALRDALAAVSIPVIEVHLSNIHAREE 109 (146)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHH----HHHHHHHHHcCCCCEEEEecCCcccccc
Confidence 4568999999888887766666554 5788999842 3333 2356677777799999998776665544
No 32
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=57.03 E-value=29 Score=38.57 Aligned_cols=59 Identities=19% Similarity=0.278 Sum_probs=43.7
Q ss_pred HHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEE
Q psy14494 37 ELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKF 100 (470)
Q Consensus 37 ~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~ 100 (470)
+.=++|+++|+.++++.||....-..++++.||+.|+.+ ..|+++.. .|+ .+++.|-.+
T Consensus 544 ~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Ae--llPedK~~--~V~-~l~~~g~~V 602 (713)
T COG2217 544 EAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAE--LLPEDKAE--IVR-ELQAEGRKV 602 (713)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhhecc--CCcHHHHH--HHH-HHHhcCCEE
Confidence 334556778999999999999999999999999999887 46766533 233 344555333
No 33
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=56.50 E-value=1.4e+02 Score=26.11 Aligned_cols=68 Identities=10% Similarity=0.195 Sum_probs=46.4
Q ss_pred HhcCCCcEEEEEcChHHHHHHHHHhc--CcCEEEEec-cCChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCc
Q psy14494 42 LQNYDSDLIIRYAIASKEIKKLVIKL--NIDAVMINH-DYEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNE 113 (470)
Q Consensus 42 L~~~G~~L~v~~g~~~~~l~~L~~~~--~~~~V~~~~-~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~ 113 (470)
-+++|..|.++..+.+..|.+.+++. +++.|+.|. .|+.+. -++.++++..++++.+++-..++..++
T Consensus 39 a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS----iAl~DAl~~~~~P~VEVHiSNi~aRE~ 109 (146)
T PRK13015 39 AEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTS----VAIRDALAALELPVIEVHISNVHAREA 109 (146)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhH----HHHHHHHHcCCCCEEEEEcCCcccccc
Confidence 34568999999888877766665553 467899884 233333 355666777799999998666665544
No 34
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=56.00 E-value=1e+02 Score=26.68 Aligned_cols=68 Identities=18% Similarity=0.275 Sum_probs=44.8
Q ss_pred hcCCCcEEEEEcChHHHHHHHHHhc--CcCEEEEec-cCChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcc
Q psy14494 43 QNYDSDLIIRYAIASKEIKKLVIKL--NIDAVMINH-DYEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEI 114 (470)
Q Consensus 43 ~~~G~~L~v~~g~~~~~l~~L~~~~--~~~~V~~~~-~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i 114 (470)
+++|+.+.++..+.+..|.+.+++. .++.|+.|. .|+.... ++.++++..++++.+++-..++.++++
T Consensus 39 ~~~g~~v~~~QSN~EGelid~I~~a~~~~dgiIINpga~thtS~----Ai~DAl~~~~~P~vEVHiSNi~~RE~f 109 (140)
T PF01220_consen 39 AELGVEVEFFQSNHEGELIDWIHEARDDVDGIIINPGAYTHTSI----AIRDALKAISIPVVEVHISNIHAREEF 109 (140)
T ss_dssp HHTTEEEEEEE-SSHHHHHHHHHHHTCTTSEEEEE-GGGGHT-H----HHHHHHHCCTS-EEEEESS-GGGS-GG
T ss_pred HHCCCeEEEEecCCHHHHHHHHHHHHhhCCEEEEccchhccccH----HHHHHHHcCCCCEEEEEcCCccccccc
Confidence 4668999999988887776666664 478999995 3444333 556677778999999987777665543
No 35
>PRK10116 universal stress protein UspC; Provisional
Probab=55.12 E-value=1.3e+02 Score=25.28 Aligned_cols=66 Identities=17% Similarity=0.106 Sum_probs=42.1
Q ss_pred HHHHHhcCCCc---EEEEEcChHHHHHHHHHhcCcCEEEEeccC-ChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 38 LSINLQNYDSD---LIIRYAIASKEIKKLVIKLNIDAVMINHDY-EPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 38 L~~~L~~~G~~---L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~-~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
|++.....|++ .++..|++.+.+.+.+++.+++-|+....- ....+-. ....+.+...+|++..+.
T Consensus 69 l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~-s~a~~v~~~~~~pVLvv~ 138 (142)
T PRK10116 69 LDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS-CSAKRVIASSEVDVLLVP 138 (142)
T ss_pred HHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH-HHHHHHHhcCCCCEEEEe
Confidence 33333445654 456689999999999999999999986542 2222222 223455666678776653
No 36
>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5.4.2.1 from EC). The family is found in conjunction with Metalloenzyme (located in the C-terminal region of the protein). ; GO: 0004619 phosphoglycerate mutase activity, 0030145 manganese ion binding, 0006007 glucose catabolic process, 0005737 cytoplasm; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3IGZ_B 3IGY_B 3NVL_A 2IFY_A.
Probab=53.04 E-value=94 Score=29.21 Aligned_cols=75 Identities=16% Similarity=0.177 Sum_probs=51.4
Q ss_pred HHHHHHHHHHhcCCCcEEEE----Ec------ChHHHHHHHHHhcCcCEEEEe-----ccCChHH-HHHHHHHHHHHHHc
Q psy14494 33 KSIIELSINLQNYDSDLIIR----YA------IASKEIKKLVIKLNIDAVMIN-----HDYEPQA-IIRDKLIKKELKVI 96 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~----~g------~~~~~l~~L~~~~~~~~V~~~-----~~~~~~~-~~rd~~v~~~l~~~ 96 (470)
+.|.++-+.+++.|..|+++ .| +-.-.|.+++++.|+..|+.| +|+.|.. ..--+.+.+.|++.
T Consensus 14 ~~l~~~~~~~k~~~~~lHl~GLlSdGGVHSh~~Hl~al~~~a~~~gv~~V~vH~f~DGRDt~P~S~~~yl~~l~~~l~~~ 93 (223)
T PF06415_consen 14 PVLLEAIEHAKKNGGRLHLMGLLSDGGVHSHIDHLFALIKLAKKQGVKKVYVHAFTDGRDTPPKSALKYLEELEEKLAEI 93 (223)
T ss_dssp HHHHHHHHHHCCTT--EEEEEEESS-SSS--HHHHHHHHHHHHHTT-SEEEEEEEE-SSSS-TTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCeEEEEEEecCCCccccHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCcchHHHHHHHHHHHHHhh
Confidence 57788888889999999997 11 334567888889999988665 4666663 56668888888887
Q ss_pred Cc-EEEEEeCce
Q psy14494 97 GC-KFFSYKDQV 107 (470)
Q Consensus 97 ~v-~~~~~~~~~ 107 (470)
|+ ++-++-+..
T Consensus 94 ~~g~IAsv~GRy 105 (223)
T PF06415_consen 94 GIGRIASVSGRY 105 (223)
T ss_dssp TCTEEEEEEECC
T ss_pred CCceEEEEecee
Confidence 65 777766543
No 37
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=52.33 E-value=1.4e+02 Score=25.08 Aligned_cols=67 Identities=9% Similarity=0.029 Sum_probs=41.5
Q ss_pred HHHHHHHhcCCCcE---EEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 36 IELSINLQNYDSDL---IIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 36 ~~L~~~L~~~G~~L---~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
+.|+..+++.|++. ++..|++.+.|.+.+++.+++-|+.-.. +......-....+.++...|++..+
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~-~~~~~~lgSva~~v~~~a~~pVLvv 137 (144)
T PRK15118 68 HALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH-QDFWSKLMSSARQLINTVHVDMLIV 137 (144)
T ss_pred HHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc-ccHHHHHHHHHHHHHhhCCCCEEEe
Confidence 33444445567653 3457999999999999999999998655 2222222223334455556766554
No 38
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=51.38 E-value=34 Score=34.69 Aligned_cols=61 Identities=23% Similarity=0.273 Sum_probs=40.1
Q ss_pred HHhcCCCc--EEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEE
Q psy14494 41 NLQNYDSD--LIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFF 101 (470)
Q Consensus 41 ~L~~~G~~--L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~ 101 (470)
+|+++|++ .+++.++|.....+.+-+.++..|+.-.|+.|..+..-+++.+.|++.||++.
T Consensus 37 ~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 37 SLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 57777773 55556666554444444458888887767777444444566788889999883
No 39
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=50.82 E-value=20 Score=33.43 Aligned_cols=45 Identities=20% Similarity=0.179 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEec
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINH 76 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~ 76 (470)
.....+|-+.|++.|..+.|..|.+......+++.+|++.++.|.
T Consensus 79 ~~ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~ 123 (212)
T COG0560 79 TPGAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANE 123 (212)
T ss_pred CccHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeE
Confidence 334778888899999999999999999999999999988777764
No 40
>PRK15456 universal stress protein UspG; Provisional
Probab=50.48 E-value=42 Score=28.48 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhcCCC--cEEEEEcChHHHHHHHHHhcCcCEEEEec
Q psy14494 31 IFKSIIELSINLQNYDS--DLIIRYAIASKEIKKLVIKLNIDAVMINH 76 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~--~L~v~~g~~~~~l~~L~~~~~~~~V~~~~ 76 (470)
..+.|.++.+.+...|. ..++..|++.+.|.+++++.+++-|++-.
T Consensus 66 ~~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 113 (142)
T PRK15456 66 AEERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGS 113 (142)
T ss_pred HHHHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcC
Confidence 34456666666654444 45667899999999999999999888764
No 41
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences.
Probab=48.13 E-value=20 Score=31.66 Aligned_cols=39 Identities=26% Similarity=0.152 Sum_probs=17.3
Q ss_pred HHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEE
Q psy14494 35 IIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVM 73 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~ 73 (470)
+.++-+.|++.|.++.|..+.....+..+++.+++..|+
T Consensus 78 ~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~ 116 (177)
T TIGR01488 78 ARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVF 116 (177)
T ss_pred HHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchhe
Confidence 333444444444444444444444444444444444333
No 42
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=47.13 E-value=8 Score=40.86 Aligned_cols=44 Identities=23% Similarity=0.147 Sum_probs=33.4
Q ss_pred cccCCCCCcchhhhhhccCCCCCCcccccChhhhhhhcCCcchhHHhhccc
Q psy14494 361 NDFDLASNNGNWQWSASSGCSSQPFFRIFNPIIQSKKFDYQGIFIRKYLPQ 411 (470)
Q Consensus 361 iD~d~a~n~~~wqw~ag~G~d~~p~~R~~np~~q~~k~Dp~g~yIr~w~Pe 411 (470)
.|.|.+.||||+--+.|= --...| ..|+.+||++|....=|.+|
T Consensus 476 ~ea~~a~NYGgIGaVIgH-EI~HgF------DdqGakfD~~GnL~dWWT~e 519 (654)
T COG3590 476 PEADSAANYGGIGAVIGH-EIGHGF------DDQGAKFDGDGNLNDWWTDE 519 (654)
T ss_pred CCcchhhcccCccceehh-hhcccc------cCCccccCCCCcHHhhcCHH
Confidence 689999999999877651 111122 35899999999999999875
No 43
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=46.95 E-value=1.6e+02 Score=24.05 Aligned_cols=67 Identities=15% Similarity=0.166 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
++.+.+ ++.++++|+++.+......+ +.......+++.|+. +|.-+-+.+.+++.+...++++...+
T Consensus 16 lla~k~---k~~~~e~gi~~~i~a~~~~e-~~~~~~~~~~DvIll----~PQi~~~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 16 MMAKKT---TEYLKEQGKDIEVDAITATE-GEKAIAAAEYDLYLV----SPQTKMYFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred HHHHHH---HHHHHHCCCceEEEEecHHH-HHHhhccCCCCEEEE----ChHHHHHHHHHHHHhhhcCCCEEEeC
Confidence 555555 66778899998887555443 444444445676666 47777788889999988899887753
No 44
>PRK10490 sensor protein KdpD; Provisional
Probab=46.53 E-value=1.1e+02 Score=35.14 Aligned_cols=93 Identities=8% Similarity=0.077 Sum_probs=57.1
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEc-ChHHHHHHHHHhcCcCEEEEeccCCh
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYA-IASKEIKKLVIKLNIDAVMINHDYEP 80 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g-~~~~~l~~L~~~~~~~~V~~~~~~~~ 80 (470)
+++.|||-+|..-. . +.....-+.+.++ |.+ ++|..++...| +..+.|.+++++.+++.|+.-+.-..
T Consensus 280 ~~~~l~V~~~~~~~---~----~~~~~~~l~~~~~-lA~---~lGa~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~ 348 (895)
T PRK10490 280 VWHAVYVETPRLHR---L----PEKKRRAILSALR-LAQ---ELGAETATLSDPAEEKAVLRYAREHNLGKIIIGRRASR 348 (895)
T ss_pred CEEEEEEecCCcCc---C----CHHHHHHHHHHHH-HHH---HcCCEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCC
Confidence 57889988774211 1 3333333445552 444 46889877777 68899999999999999999886543
Q ss_pred HHHHHHHHHHHHHH-HcCcEEEEEeC
Q psy14494 81 QAIIRDKLIKKELK-VIGCKFFSYKD 105 (470)
Q Consensus 81 ~~~~rd~~v~~~l~-~~~v~~~~~~~ 105 (470)
....+..-+.+.++ ..+|.++.+.+
T Consensus 349 ~~~~~~s~~~~l~r~~~~idi~iv~~ 374 (895)
T PRK10490 349 RWWRRESFADRLARLGPDLDLVIVAL 374 (895)
T ss_pred CCccCCCHHHHHHHhCCCCCEEEEeC
Confidence 22111112223332 24688887753
No 45
>PRK03980 flap endonuclease-1; Provisional
Probab=46.41 E-value=56 Score=32.09 Aligned_cols=15 Identities=20% Similarity=0.140 Sum_probs=10.6
Q ss_pred CccHHHHHHHHHHHH
Q psy14494 188 KTGASGAKILLNNFI 202 (470)
Q Consensus 188 ~gGe~~A~~~L~~Fl 202 (470)
-.|...|.+.++.|-
T Consensus 196 GIG~ktA~kLi~~~~ 210 (292)
T PRK03980 196 GIGPKTALKLIKKHG 210 (292)
T ss_pred CccHHHHHHHHHHCC
Confidence 357788887777763
No 46
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=45.65 E-value=35 Score=30.73 Aligned_cols=18 Identities=6% Similarity=0.239 Sum_probs=7.2
Q ss_pred HHHHHHHHHhcCcCEEEEe
Q psy14494 57 SKEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 57 ~~~l~~L~~~~~~~~V~~~ 75 (470)
.+.|..| ++.|+..++++
T Consensus 86 ~e~l~~l-~~~g~~~~IvS 103 (201)
T TIGR01491 86 EELVRWL-KEKGLKTAIVS 103 (201)
T ss_pred HHHHHHH-HHCCCEEEEEe
Confidence 3444443 23344433333
No 47
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=45.47 E-value=53 Score=29.62 Aligned_cols=57 Identities=14% Similarity=0.064 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcE
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCK 99 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~ 99 (470)
.+++.|+ +.|+++.|..|.+...+..++++.++..++...+. --..+.++|++.|+.
T Consensus 55 ~~i~~L~----~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~~------k~~~l~~~~~~~gl~ 111 (183)
T PRK09484 55 YGIRCLL----TSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQSN------KLIAFSDLLEKLAIA 111 (183)
T ss_pred HHHHHHH----HCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCCc------HHHHHHHHHHHhCCC
Confidence 3555554 47999999999999999999999999877753221 125677777777764
No 48
>PTZ00217 flap endonuclease-1; Provisional
Probab=45.18 E-value=62 Score=33.26 Aligned_cols=13 Identities=23% Similarity=0.437 Sum_probs=9.6
Q ss_pred ccHHHHHHHHHHH
Q psy14494 189 TGASGAKILLNNF 201 (470)
Q Consensus 189 gGe~~A~~~L~~F 201 (470)
.|...|.+.++.|
T Consensus 243 IG~ktA~~Li~~~ 255 (393)
T PTZ00217 243 IGPKTAYKLIKKY 255 (393)
T ss_pred ccHHHHHHHHHHc
Confidence 5788888877765
No 49
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 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 CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=44.98 E-value=1.1e+02 Score=29.29 Aligned_cols=56 Identities=16% Similarity=0.245 Sum_probs=46.2
Q ss_pred CcEEEEEcC--hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 47 SDLIIRYAI--ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 47 ~~L~v~~g~--~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
..+.++.|. ..+.|.+++++.+++.|+=. .-|+....-+.+.+.|++.||++..|+
T Consensus 43 ~~~~v~~G~lg~~~~l~~~l~~~~i~~vIDA--THPfA~~is~na~~a~~~~~ipylR~e 100 (249)
T PF02571_consen 43 PGLEVRVGRLGDEEGLAEFLRENGIDAVIDA--THPFAAEISQNAIEACRELGIPYLRFE 100 (249)
T ss_pred CCceEEECCCCCHHHHHHHHHhCCCcEEEEC--CCchHHHHHHHHHHHHhhcCcceEEEE
Confidence 345666675 57899999999999988633 349999999999999999999998875
No 50
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=44.32 E-value=1.5e+02 Score=27.88 Aligned_cols=70 Identities=13% Similarity=0.163 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC-----hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI-----ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~-----~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
|..-++.-...+-+..|++++..... -.+.|.++.+..+++.|++-.-+..+.+.|-++| |++.|+++..
T Consensus 43 ~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~l~~l~~d~iv~GaI~s~yqk~rve~l---c~~lGl~~~~ 117 (223)
T COG2102 43 FHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLKVDGIVAGAIASEYQKERVERL---CEELGLKVYA 117 (223)
T ss_pred eeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCcccEEEEchhhhHHHHHHHHHH---HHHhCCEEee
Confidence 33344444444555679998776432 3466777888889999999887777777776655 4455887654
No 51
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=42.82 E-value=40 Score=32.83 Aligned_cols=36 Identities=11% Similarity=0.054 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCc
Q psy14494 34 SIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNI 69 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~ 69 (470)
+..+|=+.|+++|+++.|..|.....+..+++..++
T Consensus 125 G~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl 160 (277)
T TIGR01544 125 GYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGV 160 (277)
T ss_pred CHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCC
Confidence 455555666666666666666555555555555444
No 52
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=42.78 E-value=94 Score=27.82 Aligned_cols=56 Identities=11% Similarity=0.119 Sum_probs=39.6
Q ss_pred HHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEE
Q psy14494 39 SINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKF 100 (470)
Q Consensus 39 ~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~ 100 (470)
=.++++.|+.++|...+.+..+..+++.+++.-|+...- |..+.. .++|++.+++.
T Consensus 55 ~~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~K--P~~~~f----r~Al~~m~l~~ 110 (175)
T COG2179 55 LAELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKK--PFGRAF----RRALKEMNLPP 110 (175)
T ss_pred HHHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccC--ccHHHH----HHHHHHcCCCh
Confidence 356778899999988888888888889889988877653 444444 44444455544
No 53
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=42.50 E-value=87 Score=29.02 Aligned_cols=65 Identities=17% Similarity=0.194 Sum_probs=43.1
Q ss_pred HHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCC-hHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 37 ELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYE-PQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 37 ~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~-~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
+.-++|++.|..++...-+..+.|.+..+ |++.|++.-... +.+......+.+++++.||+...+
T Consensus 35 ~~~~~l~~~g~~vv~~d~~~~~~l~~al~--g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ 100 (233)
T PF05368_consen 35 DRAQQLQALGAEVVEADYDDPESLVAALK--GVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVP 100 (233)
T ss_dssp HHHHHHHHTTTEEEES-TT-HHHHHHHHT--TCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEE
T ss_pred hhhhhhhcccceEeecccCCHHHHHHHHc--CCceEEeecCcchhhhhhhhhhHHHhhhccccceEEE
Confidence 34556777787655333344566766666 799999887654 566677778888888889876654
No 54
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=41.51 E-value=1.2e+02 Score=33.73 Aligned_cols=60 Identities=12% Similarity=0.209 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcC
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIG 97 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~ 97 (470)
+...+.=++|++.|+...+..|+....-..++++.|++.|++. ..|+++.+ +-+.+++.|
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~--~~PedK~~---iV~~lQ~~G 503 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAE--CKPEDKIN---VIREEQAKG 503 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcC--CCHHHHHH---HHHHHHhCC
Confidence 3444455667788999999999999999999999999998875 56776543 233344555
No 55
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=41.36 E-value=1.2e+02 Score=33.75 Aligned_cols=51 Identities=10% Similarity=0.120 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHH
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIR 85 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~r 85 (470)
....+.=++|++.|+.+.+..|+....-..++++.|++.|++. ..|+++.+
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~--~~PedK~~ 498 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAE--ATPEDKLA 498 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEcc--CCHHHHHH
Confidence 3445555677889999999999999999999999999998776 46776543
No 56
>KOG1615|consensus
Probab=40.94 E-value=33 Score=31.43 Aligned_cols=42 Identities=19% Similarity=0.184 Sum_probs=29.1
Q ss_pred HHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCE--EEEe
Q psy14494 34 SIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDA--VMIN 75 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~--V~~~ 75 (470)
++++|-..|.++|..|++..|-....+.-++...|+.. ||+|
T Consensus 92 Gi~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi~~~n~yAN 135 (227)
T KOG1615|consen 92 GIRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGIPKSNIYAN 135 (227)
T ss_pred CHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCCcHhhhhhh
Confidence 56777777777777777777777666666666666654 5554
No 57
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=40.82 E-value=85 Score=27.07 Aligned_cols=46 Identities=20% Similarity=0.226 Sum_probs=36.1
Q ss_pred EcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCcee
Q psy14494 53 YAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQVI 108 (470)
Q Consensus 53 ~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L 108 (470)
.+.+.+.|.+.+.+++...|.+| |+.+++.+.+.||++..+.+...
T Consensus 83 ~~~aDe~i~~~a~~~~~~iVaTn----------D~eLk~rlr~~GIPvi~lr~r~~ 128 (136)
T COG1412 83 GRYADECLLEAALKHGRYIVATN----------DKELKRRLRENGIPVITLRQRKL 128 (136)
T ss_pred CCChHHHHHHHHHHcCCEEEEeC----------CHHHHHHHHHcCCCEEEEeCCeE
Confidence 45678899999999996566666 56788888888999999885443
No 58
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=40.68 E-value=25 Score=26.67 Aligned_cols=39 Identities=23% Similarity=0.414 Sum_probs=28.9
Q ss_pred HhhhhcCCCCchHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCC
Q psy14494 303 FLNWCKGYTGYPLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGIN 348 (470)
Q Consensus 303 ~~~w~~G~TG~p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~id 348 (470)
+-+..+|-| +++.| ..|||..|-+|-.++.-|-|.|+++
T Consensus 18 mL~rp~GAT----i~ei~---~atGWq~HTvRgalsg~~kKklGl~ 56 (72)
T PF11994_consen 18 MLRRPEGAT----IAEIC---EATGWQPHTVRGALSGLLKKKLGLT 56 (72)
T ss_pred HHcCCCCCC----HHHHH---HhhCCchhhHHHHHHHHHHHhcCcE
Confidence 445566655 33332 4699999999999999999988765
No 59
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=40.38 E-value=62 Score=28.73 Aligned_cols=41 Identities=24% Similarity=0.280 Sum_probs=33.6
Q ss_pred HHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCE--EEEecc
Q psy14494 37 ELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDA--VMINHD 77 (470)
Q Consensus 37 ~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~--V~~~~~ 77 (470)
++=+.|++.|.+++|..|.+...+..+++..++.. |++++.
T Consensus 96 e~i~~~~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~~~ 138 (192)
T PF12710_consen 96 ELIRELKDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGNEL 138 (192)
T ss_dssp HHHHHHHHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEEEE
T ss_pred HHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEEee
Confidence 55566777899999999999999999998888887 777765
No 60
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=40.05 E-value=44 Score=26.50 Aligned_cols=47 Identities=11% Similarity=0.068 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEE
Q psy14494 26 RRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAV 72 (470)
Q Consensus 26 ~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V 72 (470)
|+..++..-+..+.+.|.++|+|++....+..+...++.+..+...+
T Consensus 32 R~~G~~~~v~~~~~~~L~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~~ 78 (89)
T PF08444_consen 32 RGQGLMSQVMYHLAQYLHKLGFPFYGHVDEDNEASQRLSKSLGFIFM 78 (89)
T ss_pred hcCCHHHHHHHHHHHHHHHCCCCeEeehHhccHHHHHHHHHCCCeec
Confidence 55668899999999999999999999988888888888888776543
No 61
>PF03392 OS-D: Insect pheromone-binding family, A10/OS-D; InterPro: IPR005055 A class of small (14-20 Kd) water-soluble proteins, called odorant binding proteins (OBPs), first discovered in the insect sensillar lymph but also in the mucus of vertebrates, is postulated to mediate the solubilisation of hydrophobic odorant molecules, and thereby to facilitate their transport to the receptor neurons. The product of a gene expressed in the olfactory system of Drosophila melanogaster (Fruit fly), OS-D, shares features common to vertebrate odorant-binding proteins, but has a primary structure unlike odorant-binding proteins []. OS-D derivatives have subsequently been found in chemosensory organs of phylogenetically distinct insects, including cockroaches, phasmids and moths, suggesting that OS-D-like proteins seem to be conserved in the insect phylum.; PDB: 1KX9_A 1N8U_A 1KX8_A 1K19_A 1N8V_A 2GVS_A 2JNT_A.
Probab=39.92 E-value=13 Score=29.95 Aligned_cols=14 Identities=43% Similarity=0.826 Sum_probs=10.0
Q ss_pred hhhcCCcchhHHhh
Q psy14494 395 SKKFDYQGIFIRKY 408 (470)
Q Consensus 395 ~~k~Dp~g~yIr~w 408 (470)
..||||+|.|.+++
T Consensus 82 ~~KyDp~~~y~~ky 95 (95)
T PF03392_consen 82 VKKYDPEGKYRKKY 95 (95)
T ss_dssp HHHHTTT-TTHHHH
T ss_pred HHHHCCCcchhhcC
Confidence 45888888888765
No 62
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=39.80 E-value=1.8e+02 Score=27.81 Aligned_cols=47 Identities=13% Similarity=0.185 Sum_probs=40.1
Q ss_pred hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 56 ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 56 ~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
..+.|.+++++.+++.|+=. .-|+....-+.+.+.|++.||++..|+
T Consensus 53 ~~~~l~~~l~~~~i~~VIDA--THPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 53 GAEGLAAYLREEGIDLVIDA--THPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred CHHHHHHHHHHCCCCEEEEC--CCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 35889999999999987633 348999999999999999999998886
No 63
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=39.74 E-value=97 Score=25.28 Aligned_cols=43 Identities=7% Similarity=0.135 Sum_probs=30.6
Q ss_pred HHHHHHHHhcCCCcEEEE-EcChHHHHHHHHHhcCcCEEEEecc
Q psy14494 35 IIELSINLQNYDSDLIIR-YAIASKEIKKLVIKLNIDAVMINHD 77 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~-~g~~~~~l~~L~~~~~~~~V~~~~~ 77 (470)
|+.+.+.+++.|++..+. .|++.+.|.+.+++.+++.|+.-..
T Consensus 51 l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~dllviG~~ 94 (124)
T cd01987 51 LAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNVTQIVVGKS 94 (124)
T ss_pred HHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCCCEEEeCCC
Confidence 445555556667765444 4578889999999999998887654
No 64
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=39.27 E-value=1.8e+02 Score=27.04 Aligned_cols=64 Identities=13% Similarity=0.112 Sum_probs=37.8
Q ss_pred HHHHHHHHHhcCCCcEEEEEcC-----hH----HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEE
Q psy14494 34 SIIELSINLQNYDSDLIIRYAI-----AS----KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFF 101 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~-----~~----~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~ 101 (470)
.+..++...+.+|+++.+..-+ .. ..|.+++++ +++.|++-.-...+.+. .+++.|...|+++.
T Consensus 44 ~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd~~~~---~~e~v~~~~gl~~~ 116 (218)
T TIGR03679 44 NIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKELKRE-GVEGIVTGAIASRYQKS---RIERICEELGLKVF 116 (218)
T ss_pred CHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc-CCCEEEECCcccHhHHH---HHHHHHHhCCCeEE
Confidence 4455666667889998887533 11 234444444 88888876544444333 34455665676653
No 65
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.08 E-value=1.5e+02 Score=27.59 Aligned_cols=71 Identities=17% Similarity=0.187 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEcC----hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYAI----ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g~----~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
.|..+-+..+++.+++.|..+.+..++ ..+.+..++...+++.|+....... ..+.+.+.+.|+++..++
T Consensus 17 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~------~~~~~~~~~~~ipvV~~~ 90 (270)
T cd06294 17 PFFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED------DPIIDYLKEEKFPFVVIG 90 (270)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC------cHHHHHHHhcCCCEEEEC
Confidence 355666777888888899998886542 2234555566667888777532211 123344567799998886
Q ss_pred C
Q psy14494 105 D 105 (470)
Q Consensus 105 ~ 105 (470)
.
T Consensus 91 ~ 91 (270)
T cd06294 91 K 91 (270)
T ss_pred C
Confidence 4
No 66
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=38.85 E-value=1.7e+02 Score=31.47 Aligned_cols=45 Identities=16% Similarity=0.132 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHhcCC-CcEEEEEcChHHHHHHHHHhcCcCEEEEe
Q psy14494 31 IFKSIIELSINLQNYD-SDLIIRYAIASKEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 31 l~esL~~L~~~L~~~G-~~L~v~~g~~~~~l~~L~~~~~~~~V~~~ 75 (470)
+..+..++=+.|++.| +++.+..|++......++++.|++.++..
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~ 430 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE 430 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeecc
Confidence 5667777778888899 99999999999999999999999988875
No 67
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=38.01 E-value=84 Score=32.77 Aligned_cols=69 Identities=17% Similarity=0.133 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHhcCCCcEEEEEc--ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 31 IFKSIIELSINLQNYDSDLIIRYA--IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~L~v~~g--~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
+=+=|..+.+++++.|..+++... +..+.+.+|+++.++..|+...+...++.. +.+.|++.|+++..-
T Consensus 49 ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eeig----l~~~L~~~g~~~~et 119 (432)
T TIGR00273 49 LDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEIG----LNEVLEKIGIEVWET 119 (432)
T ss_pred HHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHhC----CHHHHHhCCCeeeeC
Confidence 334556677888899999888743 456778899999999999998766555443 455566678876543
No 68
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=38.01 E-value=1.9e+02 Score=32.02 Aligned_cols=51 Identities=14% Similarity=0.106 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHH
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAII 84 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~ 84 (470)
.....+.=++|++.|+.+.+..|+.......++++.|++.++++ ..|+.+.
T Consensus 448 Rp~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~--~~PedK~ 498 (675)
T TIGR01497 448 KGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAE--ATPEDKI 498 (675)
T ss_pred hhHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcC--CCHHHHH
Confidence 34555566677889999999999999999999999999998875 5676543
No 69
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=37.78 E-value=91 Score=29.20 Aligned_cols=64 Identities=11% Similarity=0.023 Sum_probs=34.8
Q ss_pred HHHHHHHhcCCCcEEEEE-----cChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 36 IELSINLQNYDSDLIIRY-----AIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 36 ~~L~~~L~~~G~~L~v~~-----g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
.-++.+-+.+|+||+... .+-.+.|.+.+++.+++.|++-.-...+.+.|. ++.|.+.|++...
T Consensus 48 ~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~l~~~~v~~vv~GdI~~~~~r~~~---e~vc~~lGl~~~~ 116 (218)
T PF01902_consen 48 ELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEALKELKVEAVVFGDIDSEYQRNWV---ERVCERLGLEAVF 116 (218)
T ss_dssp TCHHHHHHHHT--EEEEEE---CCCHHHHHHHHHCTC--SEEE--TTS-HHHHHHH---HHHHHHCT-EEE-
T ss_pred HHHHHHHHHCCCCEEEEEccCccchhhHHHHHHHHHcCCCEEEECcCCcHHHHHHH---HHHHHHcCCEEEe
Confidence 334444566799998763 234567777788899999988765555555554 4456666876643
No 70
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=37.42 E-value=77 Score=25.88 Aligned_cols=40 Identities=10% Similarity=0.130 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCCCcEEEE-EcChHHHHHHHHHhc--CcCEEEEec
Q psy14494 35 IIELSINLQNYDSDLIIR-YAIASKEIKKLVIKL--NIDAVMINH 76 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~-~g~~~~~l~~L~~~~--~~~~V~~~~ 76 (470)
|.....+|++.|+.|+++ .|++.. +.++++.. ... ||++.
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~ 44 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDP 44 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeC
Confidence 667788999999999887 455545 88888654 344 88875
No 71
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=37.41 E-value=1.8e+02 Score=23.48 Aligned_cols=63 Identities=3% Similarity=0.073 Sum_probs=37.4
Q ss_pred EEEEEc---ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCce--eEcC
Q psy14494 49 LIIRYA---IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQV--IFEK 111 (470)
Q Consensus 49 L~v~~g---~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~--L~~p 111 (470)
-+|..| =+..++.++-+......++=-.-.......+.+.+.+.|+..+.++.++-|++ ||.|
T Consensus 20 Pvv~IGk~Glt~~vi~ei~~aL~~hELIKvkv~~~~~~~~~e~~~~i~~~~~ae~Vq~IG~~~vlYR~ 87 (97)
T PRK10343 20 PVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATEDRETKTLIVEAIVRETGACNVQVIGKTLVLYRP 87 (97)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEeeeCcEEEEEec
Confidence 355544 35667777766655544332221112223466677778888899999998875 4544
No 72
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=37.36 E-value=2.1e+02 Score=27.18 Aligned_cols=71 Identities=13% Similarity=0.087 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeC
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKD 105 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~ 105 (470)
-|..+-+..+.+.+++.|..+.+..........+.....+++.|+..-.... +. +-+.+++.|+++..++.
T Consensus 17 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~-~~~~~~~~~ipvV~~~~ 87 (283)
T cd06279 17 PVASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRD-----DP-LVAALLRRGLPVVVVDQ 87 (283)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCC-----hH-HHHHHHHcCCCEEEEec
Confidence 4667777778899999999998886654333333445568998887642111 12 23345667999988864
No 73
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=36.71 E-value=2.2e+02 Score=22.81 Aligned_cols=57 Identities=12% Similarity=0.167 Sum_probs=39.1
Q ss_pred CcEEEEEcChHHHHHHHHHhcCcCEEEEeccC-ChHHH-HHHHHHHHHHHHcCcEEEEE
Q psy14494 47 SDLIIRYAIASKEIKKLVIKLNIDAVMINHDY-EPQAI-IRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 47 ~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~-~~~~~-~rd~~v~~~l~~~~v~~~~~ 103 (470)
....+..|++.+.+.+++++.+++.|++...- ..... -.-....+.++...|++..+
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 139 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVV 139 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEE
T ss_pred eEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEe
Confidence 44566689999999999999999999988765 22222 22234455555667777654
No 74
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=35.93 E-value=1.2e+02 Score=32.58 Aligned_cols=46 Identities=13% Similarity=0.084 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHhcCCC-cEEEEEcChHHHHHHHHHhcCcCEEEEec
Q psy14494 31 IFKSIIELSINLQNYDS-DLIIRYAIASKEIKKLVIKLNIDAVMINH 76 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~-~L~v~~g~~~~~l~~L~~~~~~~~V~~~~ 76 (470)
+..++.++=++|++.|+ ++.+..|++......++++.|++.++.+.
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~ 409 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAEL 409 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhcc
Confidence 46677777788888999 99999999999999999999999887653
No 75
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=35.66 E-value=2.3e+02 Score=26.77 Aligned_cols=73 Identities=7% Similarity=-0.054 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.|..+-+..+.+.+++.|..+.+... ++. +.+..+. ..+++.|+.... .+ ...+..+ +.+.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~-~~--~~~~~~i-~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL-GI--GTLTEAV-QKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Ch--HHhHHHH-HHHHHCCCcEEEe
Confidence 47778888899999999999998854 333 3455544 457888888531 11 1122334 3355679999988
Q ss_pred eCc
Q psy14494 104 KDQ 106 (470)
Q Consensus 104 ~~~ 106 (470)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 653
No 76
>PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A ....
Probab=35.43 E-value=2e+02 Score=27.02 Aligned_cols=69 Identities=16% Similarity=0.102 Sum_probs=45.6
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcCh-----HHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHH
Q psy14494 24 EDRRIEFIFKSIIELSINLQNYDSDLIIRYAIA-----SKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKEL 93 (470)
Q Consensus 24 ~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~-----~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l 93 (470)
...|..+...+|+||-+-|.+-|+.+-|+.+.. -..|.+.+++.++ .|++-+.++.+..-.+..|....
T Consensus 73 ~~~R~~~a~~~l~dl~~~l~~~~G~VAI~DATN~T~~RR~~l~~~~~~~~~-~vlFIEsic~D~~ii~~NI~~~~ 146 (222)
T PF01591_consen 73 KKLREQIAKEALEDLIEWLQEEGGQVAIFDATNSTRERRKMLVERFKEHGI-KVLFIESICDDPEIIERNIREKK 146 (222)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTS--SEEEEES---SHHHHHHHHHHHHHTT--EEEEEEEE---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHcCC-cEEEEEEEeCCHHHHHHHHHHHH
Confidence 456778999999999999998899999997742 2456777777774 45555666666655666666654
No 77
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=35.31 E-value=1.2e+02 Score=28.45 Aligned_cols=70 Identities=17% Similarity=0.125 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEc---ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHH--HHHHcCcEEEE
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYA---IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKK--ELKVIGCKFFS 102 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g---~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~--~l~~~~v~~~~ 102 (470)
=-++.|..|++.|+++|+.+-+.-. ++.+-+..++..-.++.|-. + +|+--.....+++ -|+++|+....
T Consensus 120 ~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQI-K--tPDLGgi~ntieAvlyCk~~gvgaY~ 194 (248)
T PF07476_consen 120 AQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQI-K--TPDLGGINNTIEAVLYCKEHGVGAYL 194 (248)
T ss_dssp HHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE----GGGGSSTHHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEe-c--CCCccchhhHHHHHHHHHhcCCceee
Confidence 3478999999999999999988854 57777888888754554433 3 3443333344444 57888876543
No 78
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=34.52 E-value=85 Score=29.03 Aligned_cols=26 Identities=12% Similarity=0.197 Sum_probs=12.9
Q ss_pred HHhcCCCcEEEEEcChHHHHHHHHHh
Q psy14494 41 NLQNYDSDLIIRYAIASKEIKKLVIK 66 (470)
Q Consensus 41 ~L~~~G~~L~v~~g~~~~~l~~L~~~ 66 (470)
.|++.|.++.|..+.+...+..+++.
T Consensus 106 ~l~~~G~~v~IvSas~~~~~~~ia~~ 131 (210)
T TIGR01545 106 YLESSDADIWLITGSPQPLVEAVYFD 131 (210)
T ss_pred HHHhCCCEEEEEcCCcHHHHHHHHHh
Confidence 44444555555555555555555444
No 79
>cd07322 PriL_PriS_Eukaryotic Eukaryotic core primase: Large subunit, PriL. Primases synthesize the RNA primers required for DNA replication. Primases are grouped into two classes, bacteria/bacteriophage and archaeal/eukaryotic. The proteins in the two classes differ in structure and the replication apparatus components. Archaeal/eukaryotic core primase is a heterodimeric enzyme consisting of a small catalytic subunit (PriS) and a large subunit (PriL). In eukaryotic organisms, a heterotetrameric enzyme formed by DNA polymerase alpha, the B subunit and two primase subunits has primase activity. Although the catalytic activity resides within PriS, the PriL subunit is essential for primase function as disruption of the PriL gene in yeast is lethal. PriL is composed of two structural domains. Several functions have been proposed for PriL such as stabilization of the PriS, involvement in synthesis initiation, improvement of primase processivity, determination of product size and transfer of
Probab=34.37 E-value=1.1e+02 Score=31.30 Aligned_cols=46 Identities=11% Similarity=0.185 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHhc
Q psy14494 314 PLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANKL 360 (470)
Q Consensus 314 p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~L 360 (470)
||+-+.+..|+...-+-|-+|+-.++||- .+|++=.+.-.+|...+
T Consensus 226 ~Cm~~l~~~l~~~~hL~h~gR~ql~lFLk-~iGl~~~e~l~~~~~~f 271 (390)
T cd07322 226 LCMRQLHEALRKNHHLKHGGRLQLGLFLK-GIGLSLEEALKFWRSEF 271 (390)
T ss_pred HHHHHHHHHHhcCCCCCchhHHHHHHHHH-hCCCCHHHHHHHHHHhh
Confidence 57777778888889999999999999985 57888777766665543
No 80
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=34.17 E-value=51 Score=30.30 Aligned_cols=34 Identities=18% Similarity=0.073 Sum_probs=13.7
Q ss_pred HHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCE
Q psy14494 38 LSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDA 71 (470)
Q Consensus 38 L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~ 71 (470)
+=+.|++.|.++.|..+.....+..+++..++..
T Consensus 93 ~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~ 126 (219)
T TIGR00338 93 LVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDA 126 (219)
T ss_pred HHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCc
Confidence 3333344444444444443333333444444333
No 81
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=33.39 E-value=1.2e+02 Score=26.35 Aligned_cols=55 Identities=9% Similarity=-0.026 Sum_probs=39.4
Q ss_pred HHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCc
Q psy14494 38 LSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGC 98 (470)
Q Consensus 38 L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v 98 (470)
.=++|++.|+.+.|..+.+...+..+++.+++...+.... + --..+.+++++.|+
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~~--~----k~~~~~~~~~~~~~ 90 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQS--N----KLIAFSDILEKLAL 90 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEeccc--c----hHHHHHHHHHHcCC
Confidence 3445667899999999999888889999999998776431 1 12345666666564
No 82
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=33.25 E-value=2.7e+02 Score=22.89 Aligned_cols=70 Identities=14% Similarity=0.181 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHH--HcCcEEEEEeC
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELK--VIGCKFFSYKD 105 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~--~~~v~~~~~~~ 105 (470)
.++..|.+.|.+.|..++.. .+..+.+.-+-....+.+|+.+-+ .....-...+-+.++ ..+|++..+-+
T Consensus 4 a~~~~l~~~L~~~~~~vv~~-~~~dd~~~~i~~~~~i~avvi~~d--~~~~~~~~~ll~~i~~~~~~iPVFl~~~ 75 (115)
T PF03709_consen 4 AASRELAEALEQRGREVVDA-DSTDDALAIIESFTDIAAVVISWD--GEEEDEAQELLDKIRERNFGIPVFLLAE 75 (115)
T ss_dssp HHHHHHHHHHHHTTTEEEEE-SSHHHHHHHHHCTTTEEEEEEECH--HHHHHHHHHHHHHHHHHSTT-EEEEEES
T ss_pred HHHHHHHHHHHHCCCEEEEe-CChHHHHHHHHhCCCeeEEEEEcc--cccchhHHHHHHHHHHhCCCCCEEEEec
Confidence 57889999999988887665 566666666655578999999976 332223333333333 34688766544
No 83
>PF08218 Citrate_ly_lig: Citrate lyase ligase C-terminal domain; InterPro: IPR013166 [Citrate (pro-3S)-lyase] ligase (6.2.1.22 from EC), also known as citrate lyase ligase, is responsible for acetylation of the prosthetic group (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase. It converts the inactive thiol form of the enzyme to the active form. In Clostridium sphenoides, citrate lyase ligase actively degrades citrate. In Clostridium sporosphaeroides and Lactococcus lactis, however, the enzyme is under stringent regulatory control. The enzyme's activity in anaerobic bacteria is modulated by phosphorylation and dephosphorylation []. The proteins in this entry represent the C-terminal domain of citrate lyase ligase.; GO: 0008771 [citrate (pro-3S)-lyase] ligase activity
Probab=33.00 E-value=2.3e+02 Score=25.69 Aligned_cols=96 Identities=19% Similarity=0.204 Sum_probs=66.6
Q ss_pred EEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcC--------h-----------HHHHHH-
Q psy14494 3 VYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAI--------A-----------SKEIKK- 62 (470)
Q Consensus 3 vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~--------~-----------~~~l~~- 62 (470)
.+-|||...+.-. ++ -..|...+.++.+||.+=---.|++.+|-... . ...+.+
T Consensus 28 ~l~vFVV~eD~S~-Fp-----f~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~iF~~~ 101 (182)
T PF08218_consen 28 WLHVFVVSEDRSL-FP-----FADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQAELDATIFKKY 101 (182)
T ss_pred EEEEEEEccccCc-CC-----HHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHHHHHHHHHHHH
Confidence 5778998875321 11 56789999999999966444445665554211 0 123444
Q ss_pred HHHhcCcCEEEEeccC-ChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 63 LVIKLNIDAVMINHDY-EPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 63 L~~~~~~~~V~~~~~~-~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
++..+||+.=|.-.|+ ++-...--+.++++|...||++...+
T Consensus 102 IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~ 144 (182)
T PF08218_consen 102 IAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIP 144 (182)
T ss_pred hhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEe
Confidence 7888999988887664 56667777889999999999998763
No 84
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=32.99 E-value=2.5e+02 Score=26.19 Aligned_cols=69 Identities=17% Similarity=0.349 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcChHH----HHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeC
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAIASK----EIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKD 105 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~~~~----~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~ 105 (470)
|..+-+..+++.++++|..+.+...+..+ .+...+.+.+++.|+...... . ..+. .+.+.|+++..++.
T Consensus 16 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~-----~~~~-~l~~~~ipvV~~~~ 88 (268)
T cd06277 16 FYSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIS-T-----EYIK-EIKELGIPFVLVDH 88 (268)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCC-h-----HHHH-HHhhcCCCEEEEcc
Confidence 55667777888999999998887543221 223333456899988764221 1 1233 35567999888754
No 85
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=32.93 E-value=98 Score=25.03 Aligned_cols=49 Identities=16% Similarity=0.269 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCc----CEEEEeccC
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNI----DAVMINHDY 78 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~----~~V~~~~~~ 78 (470)
-+.+++.++=+.|++.|.++.+..+.....+..+++..++ +.|+.....
T Consensus 24 ~~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 76 (139)
T cd01427 24 ELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNGA 76 (139)
T ss_pred CcCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccchh
Confidence 3456666777777888999999999999999888888876 556655443
No 86
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=32.82 E-value=2.6e+02 Score=22.44 Aligned_cols=63 Identities=24% Similarity=0.338 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhcCCCcEEEE----E---------cC-hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcC
Q psy14494 32 FKSIIELSINLQNYDSDLIIR----Y---------AI-ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIG 97 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~----~---------g~-~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~ 97 (470)
-++|.+|..=.+..|+.+.-. . |. -.+.|.++++..+++.|+++.+.+|... +.+++.+ |
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 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQ---RNLEKAL---G 80 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHH---HHHHHHH---C
Confidence 578888888888889775432 1 11 2467888999999999999999888642 3344444 6
Q ss_pred cEE
Q psy14494 98 CKF 100 (470)
Q Consensus 98 v~~ 100 (470)
|++
T Consensus 81 ~~V 83 (95)
T PF13167_consen 81 VKV 83 (95)
T ss_pred Cee
Confidence 655
No 87
>PLN02954 phosphoserine phosphatase
Probab=32.73 E-value=58 Score=30.03 Aligned_cols=27 Identities=15% Similarity=0.119 Sum_probs=10.0
Q ss_pred HHhcCCCcEEEEEcChHHHHHHHHHhc
Q psy14494 41 NLQNYDSDLIIRYAIASKEIKKLVIKL 67 (470)
Q Consensus 41 ~L~~~G~~L~v~~g~~~~~l~~L~~~~ 67 (470)
.|++.|+++.|..+.....+..+++.+
T Consensus 95 ~l~~~g~~~~IvS~~~~~~i~~~l~~~ 121 (224)
T PLN02954 95 KLRARGTDVYLVSGGFRQMIAPVAAIL 121 (224)
T ss_pred HHHHCCCEEEEECCCcHHHHHHHHHHh
Confidence 333333333333333333333333333
No 88
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=32.61 E-value=6e+02 Score=28.85 Aligned_cols=94 Identities=10% Similarity=0.128 Sum_probs=60.9
Q ss_pred cEEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEc-ChHHHHHHHHHhcCcCEEEEeccCCh
Q psy14494 2 EVYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYA-IASKEIKKLVIKLNIDAVMINHDYEP 80 (470)
Q Consensus 2 ~vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g-~~~~~l~~L~~~~~~~~V~~~~~~~~ 80 (470)
|...|||-.|+.... +.....- ++....|.++ +|.....+.| +..+.|.+.|+.++++.|+.-+.-..
T Consensus 278 ~~~av~v~~~~~~~~-------~~~~~~~-l~~~~~Lae~---lGae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~ 346 (890)
T COG2205 278 KWTAVYVETPELHRL-------SEKEARR-LHENLRLAEE---LGAEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRS 346 (890)
T ss_pred CeEEEEEeccccccc-------cHHHHHH-HHHHHHHHHH---hCCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcch
Confidence 467899999876543 2222333 3344455554 4888888875 66788999999999999999887666
Q ss_pred HHHHH-HHHHHHHHH--HcCcEEEEEeCc
Q psy14494 81 QAIIR-DKLIKKELK--VIGCKFFSYKDQ 106 (470)
Q Consensus 81 ~~~~r-d~~v~~~l~--~~~v~~~~~~~~ 106 (470)
.++.+ ...+.+.+- ..++.++.+...
T Consensus 347 rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 347 RWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred HHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 55433 334443332 346777776543
No 89
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=32.59 E-value=2.4e+02 Score=22.73 Aligned_cols=62 Identities=16% Similarity=0.154 Sum_probs=42.7
Q ss_pred HHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 36 IELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 36 ~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
..+++.++++|+++.+..... ..+..... +++.|+. +|.-+-+-..+++.+...|+++...+
T Consensus 18 ~km~~~a~~~gi~~~i~a~~~-~e~~~~~~--~~Dvill----~PQv~~~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 18 NALNKGAKERGVPLEAAAGAY-GSHYDMIP--DYDLVIL----APQMASYYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred HHHHHHHHHCCCcEEEEEeeH-HHHHHhcc--CCCEEEE----cChHHHHHHHHHHHhhhcCCCEEEeC
Confidence 445566778999988875444 34444444 3565555 47777777889999988899987754
No 90
>PRK11590 hypothetical protein; Provisional
Probab=32.46 E-value=1.1e+02 Score=28.22 Aligned_cols=36 Identities=8% Similarity=0.084 Sum_probs=19.9
Q ss_pred HHHhcCCCcEEEEEcChHHHHHHHHHhcC---cCEEEEe
Q psy14494 40 INLQNYDSDLIIRYAIASKEIKKLVIKLN---IDAVMIN 75 (470)
Q Consensus 40 ~~L~~~G~~L~v~~g~~~~~l~~L~~~~~---~~~V~~~ 75 (470)
+.|++.|.++.|..+.+...+..+++..+ +.+|++.
T Consensus 106 ~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t 144 (211)
T PRK11590 106 TYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIAS 144 (211)
T ss_pred HHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEE
Confidence 44555566666666666655555655555 2444444
No 91
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=31.93 E-value=73 Score=27.72 Aligned_cols=45 Identities=24% Similarity=0.268 Sum_probs=30.4
Q ss_pred HHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 57 SKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 57 ~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.+.+.+++++.+++.|+..-.. .+.+.-+++-+.|++.+|+++.+
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~--~~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPW--SEEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TT--S-HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcCc--cCHHHHHHHHHHHHhCCCEEEEe
Confidence 3678889999999999988533 34556678888999999998764
No 92
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=31.75 E-value=1.3e+02 Score=28.52 Aligned_cols=46 Identities=11% Similarity=0.167 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCc----CEEEEeccC
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNI----DAVMINHDY 78 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~----~~V~~~~~~ 78 (470)
.++.++=+.|+++|+++.|..+.+.+.+..+.+.+++ +.|++..+.
T Consensus 111 pgv~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~gl~~~Fd~iv~~~~~ 160 (248)
T PLN02770 111 NGLYKLKKWIEDRGLKRAAVTNAPRENAELMISLLGLSDFFQAVIIGSEC 160 (248)
T ss_pred ccHHHHHHHHHHcCCeEEEEeCCCHHHHHHHHHHcCChhhCcEEEecCcC
Confidence 3566677777778888888888777777777777664 356665553
No 93
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=31.23 E-value=2.7e+02 Score=26.71 Aligned_cols=71 Identities=10% Similarity=0.135 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHhcC-----CCcEEEEEcChHHHHHHHHHhcCcCEEEEe-ccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 29 EFIFKSIIELSINLQNY-----DSDLIIRYAIASKEIKKLVIKLNIDAVMIN-HDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~-----G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~-~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
.=+.+.|.+|.+.+++. +..+++. .+.+..|++.+|...+... .+-+| ..+.-.++.+.+++.+|++..
T Consensus 148 ~~~~~~L~~l~~~~~~~~~~~~~~~~v~~----H~af~Y~~~~ygl~~~~~~~~~~ep-s~~~l~~l~~~ik~~~v~~if 222 (266)
T cd01018 148 DALLAELDALDSEIRTILSKLKQRAFMVY----HPAWGYFARDYGLTQIPIEEEGKEP-SPADLKRLIDLAKEKGVRVVF 222 (266)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCeEEEE----CchhHHHHHHcCCEEEecCCCCCCC-CHHHHHHHHHHHHHcCCCEEE
Confidence 33455566666655532 2223332 3578999999999866542 11222 234446677778888998877
Q ss_pred Ee
Q psy14494 103 YK 104 (470)
Q Consensus 103 ~~ 104 (470)
++
T Consensus 223 ~e 224 (266)
T cd01018 223 VQ 224 (266)
T ss_pred Ec
Confidence 64
No 94
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=31.13 E-value=1.5e+02 Score=23.74 Aligned_cols=61 Identities=16% Similarity=0.201 Sum_probs=38.0
Q ss_pred HHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 35 IIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
+.++.+.+++ ..|+|..|+-.+++...... ++..|+......| ++.+.+.+++.+|++...
T Consensus 31 ~~~~~~~~~~--~~lvIt~gdR~di~~~a~~~-~i~~iIltg~~~~-----~~~v~~la~~~~i~vi~t 91 (105)
T PF07085_consen 31 LSDFLEYLKP--GDLVITPGDREDIQLAAIEA-GIACIILTGGLEP-----SEEVLELAKELGIPVIST 91 (105)
T ss_dssp HHHHHHCHHT--TEEEEEETT-HHHHHHHCCT-TECEEEEETT---------HHHHHHHHHHT-EEEE-
T ss_pred HHHHHhhcCC--CeEEEEeCCcHHHHHHHHHh-CCCEEEEeCCCCC-----CHHHHHHHHHCCCEEEEE
Confidence 4455555554 57888889988888765554 6777877765444 456777888889888664
No 95
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=31.09 E-value=1.6e+02 Score=23.80 Aligned_cols=46 Identities=15% Similarity=0.168 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC-EEEEec
Q psy14494 31 IFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID-AVMINH 76 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~-~V~~~~ 76 (470)
.+..|.++.+++++.|..++.+..++.+.+.+++++.+.. .++++.
T Consensus 44 ~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D~ 90 (124)
T PF00578_consen 44 ELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSDP 90 (124)
T ss_dssp HHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEET
T ss_pred chhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccCc
Confidence 3566899999999999999999888888999999988865 566663
No 96
>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family. A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.
Probab=30.84 E-value=2.5e+02 Score=22.59 Aligned_cols=56 Identities=13% Similarity=0.105 Sum_probs=34.5
Q ss_pred EEEEc---ChHHHHHHHHHhcCcC---EEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCcee
Q psy14494 50 IIRYA---IASKEIKKLVIKLNID---AVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQVI 108 (470)
Q Consensus 50 ~v~~g---~~~~~l~~L~~~~~~~---~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L 108 (470)
+|..| =+..++.++-+..... .|-+.... ...+.+.+.+.+++.+..+.++-|+++
T Consensus 19 ~v~IGK~Glt~~vi~ei~~aL~~hELIKVkvl~~~---~~~~~e~a~~i~~~~~a~~Vq~iG~~~ 80 (95)
T TIGR00253 19 VVLVGKNGLTEGVIKEIEQALEHRELIKVKVATED---REDKTLIAEALVKETGACNVQVIGKTI 80 (95)
T ss_pred eEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCC---hhHHHHHHHHHHHHHCCEEEEEEccEE
Confidence 45544 3566776666665444 33333221 234566677777788999999988854
No 97
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=30.36 E-value=2.8e+02 Score=22.05 Aligned_cols=62 Identities=16% Similarity=0.119 Sum_probs=43.1
Q ss_pred HHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 36 IELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 36 ~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
..+++.++++|+++.+......+ +..... +++.|+.. |.-+...+.+++.+...|+++...+
T Consensus 21 ~k~~~~~~~~gi~~~v~a~~~~~-~~~~~~--~~Dvill~----pqi~~~~~~i~~~~~~~~ipv~~I~ 82 (95)
T TIGR00853 21 NKMNKAAEEYGVPVKIAAGSYGA-AGEKLD--DADVVLLA----PQVAYMLPDLKKETDKKGIPVEVIN 82 (95)
T ss_pred HHHHHHHHHCCCcEEEEEecHHH-HHhhcC--CCCEEEEC----chHHHHHHHHHHHhhhcCCCEEEeC
Confidence 45666788899999887666544 333333 35666664 6666677888888888889887754
No 98
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=30.24 E-value=78 Score=29.14 Aligned_cols=32 Identities=6% Similarity=-0.084 Sum_probs=13.3
Q ss_pred HHHHHHHHHhcCCCcEEEEEcChHHHHHHHHH
Q psy14494 34 SIIELSINLQNYDSDLIIRYAIASKEIKKLVI 65 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~ 65 (470)
++.++=+.|++.|+++.|..+.....+..+++
T Consensus 74 g~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~ 105 (214)
T TIGR03333 74 GFREFVAFINEHGIPFYVISGGMDFFVYPLLE 105 (214)
T ss_pred cHHHHHHHHHHCCCeEEEECCCcHHHHHHHHH
Confidence 33344444444444444444444333333333
No 99
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=29.85 E-value=54 Score=30.28 Aligned_cols=14 Identities=7% Similarity=-0.100 Sum_probs=5.3
Q ss_pred HhcCCCcEEEEEcC
Q psy14494 42 LQNYDSDLIIRYAI 55 (470)
Q Consensus 42 L~~~G~~L~v~~g~ 55 (470)
|++.|+++.+..+.
T Consensus 104 l~~~g~~~~i~S~~ 117 (222)
T PRK10826 104 CKAQGLKIGLASAS 117 (222)
T ss_pred HHHCCCeEEEEeCC
Confidence 33333333333333
No 100
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=29.60 E-value=2.8e+02 Score=25.81 Aligned_cols=72 Identities=15% Similarity=0.235 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
|..+-+..+.+.++++|..+.+... ++. +.+..+.. .+++.|+.... .+. ..+..+ +.+++.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~-~~~--~~~~~i-~~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIA-QKVDAIIIQHG-RAE--VLKPWV-KRALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecC-Chh--hhHHHH-HHHHHcCCCEEEec
Confidence 5567777888899999999888743 333 34455544 48998888632 111 112223 33566799998886
Q ss_pred Cc
Q psy14494 105 DQ 106 (470)
Q Consensus 105 ~~ 106 (470)
..
T Consensus 88 ~~ 89 (273)
T cd06305 88 VD 89 (273)
T ss_pred CC
Confidence 53
No 101
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=29.07 E-value=3.3e+02 Score=25.68 Aligned_cols=72 Identities=11% Similarity=-0.023 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEc-ChHH---HHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeC
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYA-IASK---EIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKD 105 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g-~~~~---~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~ 105 (470)
|..+-++.+.+.+++.|..+.+... ++.+ .+..+. ..+++.|+....-. .....+.+.+.+.||++..+++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~----~~~~~~~~~~~~~~iPvV~~~~ 87 (289)
T cd01540 13 WFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNLG-AQGAKGFVICVPDV----KLGPAIVAKAKAYNMKVVAVDD 87 (289)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHHH-HcCCCEEEEccCch----hhhHHHHHHHHhCCCeEEEecC
Confidence 5567777888889999999888744 3332 333433 35788888753111 1112333445678999998864
Q ss_pred c
Q psy14494 106 Q 106 (470)
Q Consensus 106 ~ 106 (470)
.
T Consensus 88 ~ 88 (289)
T cd01540 88 R 88 (289)
T ss_pred C
Confidence 3
No 102
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=28.52 E-value=1e+02 Score=26.42 Aligned_cols=10 Identities=10% Similarity=0.096 Sum_probs=5.1
Q ss_pred ChHHHHHHHH
Q psy14494 55 IASKEIKKLV 64 (470)
Q Consensus 55 ~~~~~l~~L~ 64 (470)
...+.|..|.
T Consensus 81 ~~~~~L~~l~ 90 (176)
T PF13419_consen 81 GVRELLERLK 90 (176)
T ss_dssp THHHHHHHHH
T ss_pred hhhhhhhhcc
Confidence 3455555553
No 103
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=28.51 E-value=3.7e+02 Score=24.90 Aligned_cols=73 Identities=10% Similarity=0.163 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEcC-----hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYAI-----ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g~-----~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.|..+-+..+++.+++.|..+.+...+ ....+.+++...+++.|+....... +..+.+.+.+.++++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-----~~~~~~~~~~~~ipvv~i 86 (270)
T cd01545 12 GYVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSD-----NPELLDLLDEAGVPYVRI 86 (270)
T ss_pred ccHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCC-----ccHHHHHHHhcCCCEEEE
Confidence 355666777777888999998887543 1234555555678998887632111 112233456678999888
Q ss_pred eCc
Q psy14494 104 KDQ 106 (470)
Q Consensus 104 ~~~ 106 (470)
+..
T Consensus 87 ~~~ 89 (270)
T cd01545 87 APG 89 (270)
T ss_pred ecC
Confidence 643
No 104
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=28.27 E-value=2.9e+02 Score=28.32 Aligned_cols=70 Identities=10% Similarity=0.067 Sum_probs=46.1
Q ss_pred cHH-HHHHHHHHHHHHHHHHhcCCCc----------EEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHH
Q psy14494 24 EDR-RIEFIFKSIIELSINLQNYDSD----------LIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKE 92 (470)
Q Consensus 24 ~~~-r~~Fl~esL~~L~~~L~~~G~~----------L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~ 92 (470)
|.+ |..|...=++++++.|+..|+. ++|...++.+++..|.+-+|+..+---..+.......-+.+.+.
T Consensus 16 g~~~R~~fe~~L~~Ni~~~l~~~~~~~~~v~~~~~ri~v~~~~~~~~~~~l~~vfGI~~~s~~~~~~~~~~~i~~~~~~~ 95 (381)
T PRK08384 16 SRQTRRWFENILMNNIREALVSEGIEFKKVEAKHGRILVKTNRAEEAVEVLTRVFGIVSLSPAMEIDAELEKINRTALKL 95 (381)
T ss_pred CCchHHHHHHHHHHHHHHHHHhcCCccceEEEECCEEEEEcCCHHHHHHHHhhCCCceeEEEEEEeCCCHHHHHHHHHHH
Confidence 544 8899999999999999988733 44443345567888888899987755444444333333334444
Q ss_pred H
Q psy14494 93 L 93 (470)
Q Consensus 93 l 93 (470)
+
T Consensus 96 ~ 96 (381)
T PRK08384 96 F 96 (381)
T ss_pred H
Confidence 4
No 105
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=27.68 E-value=1.2e+02 Score=28.26 Aligned_cols=72 Identities=11% Similarity=0.169 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEE-Ec--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIR-YA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~-~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
|..+...-+++.++++|..+.+. .+ ++. +.+..++.+ +++.|+..---... ....+ +.+++.||++..+
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~-~~d~Iiv~~~~~~~---~~~~l-~~~~~~gIpvv~~ 86 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQ-GVDGIIVSPVDPDS---LAPFL-EKAKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHT-TESEEEEESSSTTT---THHHH-HHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHh-cCCEEEecCCCHHH---HHHHH-HHHhhcCceEEEE
Confidence 77778888888899999999885 43 232 345555443 79988876322111 11233 3366789999998
Q ss_pred eCc
Q psy14494 104 KDQ 106 (470)
Q Consensus 104 ~~~ 106 (470)
+..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 766
No 106
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=27.55 E-value=4e+02 Score=24.26 Aligned_cols=70 Identities=9% Similarity=0.163 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC--h---HHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI--A---SKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~--~---~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
|..+-...+++.++++|..+.+...+ + .+.+..+.. .+++.|+.......... .+.+.+.||++..+.
T Consensus 13 ~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~~~------~~~~~~~~ipvv~~~ 85 (264)
T cd06267 13 FFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDDEL------LEELAALGIPVVLVD 85 (264)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcchHH------HHHHHHcCCCEEEec
Confidence 44555666777777789999888553 2 345555554 48888887644322211 333567799998876
Q ss_pred Cc
Q psy14494 105 DQ 106 (470)
Q Consensus 105 ~~ 106 (470)
..
T Consensus 86 ~~ 87 (264)
T cd06267 86 RP 87 (264)
T ss_pred cc
Confidence 43
No 107
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=27.24 E-value=3.2e+02 Score=31.54 Aligned_cols=39 Identities=10% Similarity=0.005 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID 70 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~ 70 (470)
.+...+.=++|++.|+.+.++.|+....-..++++.|+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 552 KETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 456666677788899999999999999999999999996
No 108
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=26.34 E-value=3.2e+02 Score=29.47 Aligned_cols=42 Identities=17% Similarity=0.105 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEE
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMI 74 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~ 74 (470)
.....++=++|++.|+++.+..|+.......+++.+|++ ++.
T Consensus 407 ~~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~ 448 (562)
T TIGR01511 407 RPEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRA 448 (562)
T ss_pred cHHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEc
Confidence 445555566677889999999999999999999999997 444
No 109
>PRK10671 copA copper exporting ATPase; Provisional
Probab=26.33 E-value=3.3e+02 Score=31.03 Aligned_cols=44 Identities=14% Similarity=0.148 Sum_probs=36.1
Q ss_pred HHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHH
Q psy14494 37 ELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQA 82 (470)
Q Consensus 37 ~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~ 82 (470)
+.=++|++.|+++.+..|+.......++++.|++.++.. ..|..
T Consensus 657 ~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~--~~p~~ 700 (834)
T PRK10671 657 AALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAG--VLPDG 700 (834)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeC--CCHHH
Confidence 333666788999999999999999999999999998876 34554
No 110
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=26.14 E-value=3.8e+02 Score=26.57 Aligned_cols=74 Identities=14% Similarity=0.186 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC-hHHHHHHHHHh-c--CcCEEEEeccCChHHHHHHHHHHHHH-HHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI-ASKEIKKLVIK-L--NIDAVMINHDYEPQAIIRDKLIKKEL-KVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~-~~~~l~~L~~~-~--~~~~V~~~~~~~~~~~~rd~~v~~~l-~~~~v~~~~~~ 104 (470)
|+-+.++.|++.+.+ +.-++.+.|- ...++..++.+ . ++.+|+++....+. .+ .+.+.+.+ +..||+++.++
T Consensus 2 ~~~~~~~~l~~~v~~-~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~-~E-~e~~~~~~~~~lgi~~~vvd 78 (311)
T TIGR00884 2 FIEEAVEEIREQVGD-AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK-GE-AEQVVKTFGDRLGLNLVYVD 78 (311)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh-HH-HHHHHHHHHHHcCCcEEEEe
Confidence 778889999999876 3333334553 22344455544 3 45677777655442 22 33444444 46899988776
Q ss_pred Cc
Q psy14494 105 DQ 106 (470)
Q Consensus 105 ~~ 106 (470)
-.
T Consensus 79 ~~ 80 (311)
T TIGR00884 79 AK 80 (311)
T ss_pred Cc
Confidence 44
No 111
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=26.02 E-value=3.8e+02 Score=25.04 Aligned_cols=71 Identities=8% Similarity=0.061 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEcCh----HHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYAIA----SKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g~~----~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
.|..+-+..+.+.++++|..+++...+. .+.+..+....+++.|+.... .+. ..+.+.+++.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~-----~~~~~~l~~~~iPvv~~~ 85 (269)
T cd06297 12 EFYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLT-----ERLAERRLPTERPVVLVD 85 (269)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccC-----hHHHHHHhhcCCCEEEEc
Confidence 4567777888889999999998875432 234444455668998888742 111 123344566799998886
Q ss_pred C
Q psy14494 105 D 105 (470)
Q Consensus 105 ~ 105 (470)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 4
No 112
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=25.75 E-value=2e+02 Score=23.51 Aligned_cols=67 Identities=15% Similarity=0.124 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHhcCC-CcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHH
Q psy14494 27 RIEFIFKSIIELSINLQNYD-SDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKEL 93 (470)
Q Consensus 27 r~~Fl~esL~~L~~~L~~~G-~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l 93 (470)
+..+|-+-...+...|++.| +.=.+..--..+++..|++.+|=..||.-.........|+..|.+-.
T Consensus 3 ~~e~l~~l~~~i~~~l~~~g~i~~~~a~~ig~~~~~~L~~~~gG~~iyiP~~~~~~~~~R~~~I~~~f 70 (108)
T PF08765_consen 3 WPELLSELADVIAAELERLGEIDAELAEIIGEEVALKLCRYFGGQQIYIPKCDRLLRALRNREIRREF 70 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHTS-S-----TTSHHHHHHHHHHHH-SS------SHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHCCEeEEeeCccHHHHHHHHHHHHHHh
Confidence 34456666666788888888 66444445577889999999999999987765555667777777755
No 113
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=25.52 E-value=4.9e+02 Score=25.05 Aligned_cols=73 Identities=16% Similarity=0.222 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCcEEEEEcC--hH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 28 IEFIFKSIIELSINLQNYDSDLIIRYAI--AS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 28 ~~Fl~esL~~L~~~L~~~G~~L~v~~g~--~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
-.|+.+....+++.+++.|..+++...+ +. +.+..+.. .+++.|+..... ....+..+ +.+++.|+++..
T Consensus 10 ~~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~-~~vDgIIi~~~~---~~~~~~~l-~~~~~~~iPvV~ 84 (302)
T TIGR02634 10 LERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIA-RGVDVLVIIPQN---GQVLSNAV-QEAKDEGIKVVA 84 (302)
T ss_pred hhhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeCCC---hhHHHHHH-HHHHHCCCeEEE
Confidence 4578888899999999999999887442 22 34444433 488888876321 11223333 335678999998
Q ss_pred EeC
Q psy14494 103 YKD 105 (470)
Q Consensus 103 ~~~ 105 (470)
++.
T Consensus 85 ~d~ 87 (302)
T TIGR02634 85 YDR 87 (302)
T ss_pred ecC
Confidence 864
No 114
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=25.49 E-value=72 Score=29.40 Aligned_cols=41 Identities=12% Similarity=0.097 Sum_probs=21.1
Q ss_pred HHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEe
Q psy14494 34 SIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~ 75 (470)
+..++=+.|++.| ++.|..|.....+..+++.+|++.+++|
T Consensus 72 ga~ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 72 GAVEFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred cHHHHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 3344444444433 5555555555555555555555555443
No 115
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=25.34 E-value=3.3e+02 Score=31.41 Aligned_cols=39 Identities=8% Similarity=0.009 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID 70 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~ 70 (470)
.+...+.=++|++.|+.+.++.|+....-..++++.|+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~ 590 (903)
T PRK15122 552 KESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLE 590 (903)
T ss_pred HHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 445566667778899999999999999999999999996
No 116
>smart00475 53EXOc 5'-3' exonuclease.
Probab=25.15 E-value=2.1e+02 Score=27.58 Aligned_cols=48 Identities=15% Similarity=0.117 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHhcCCCcEEEEEc-ChHHHHHHHHHhc---CcCEEEEeccC
Q psy14494 31 IFKSIIELSINLQNYDSDLIIRYA-IASKEIKKLVIKL---NIDAVMINHDY 78 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~L~v~~g-~~~~~l~~L~~~~---~~~~V~~~~~~ 78 (470)
+.+.+..+++-|+..|++.+...| ++.+++..|+... |...+++..|.
T Consensus 82 L~~q~~~~~~~l~~~gi~~i~~~g~EADD~iatla~~~~~~g~~~~IvS~Dk 133 (259)
T smart00475 82 LLEQIPLIKELLDALGIPVLEVEGYEADDVIATLAKKAEAEGYEVRIVSGDK 133 (259)
T ss_pred HHHHHHHHHHHHHHCCCCEEeeCCcCHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence 566678888899999999988888 8999998888764 44555566543
No 117
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=25.15 E-value=95 Score=24.55 Aligned_cols=41 Identities=15% Similarity=0.018 Sum_probs=21.9
Q ss_pred HHHHHHhcCcCEEEEeccCChHHHH-HHHHHHHHHHHcCcEE
Q psy14494 60 IKKLVIKLNIDAVMINHDYEPQAII-RDKLIKKELKVIGCKF 100 (470)
Q Consensus 60 l~~L~~~~~~~~V~~~~~~~~~~~~-rd~~v~~~l~~~~v~~ 100 (470)
+.+++++.+++-|+........... -...+++.+.+.+|++
T Consensus 52 i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~ 93 (95)
T PF02142_consen 52 IMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPL 93 (95)
T ss_dssp HHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHE
T ss_pred HHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCC
Confidence 5556666677766655443332222 3456666666666654
No 118
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=25.15 E-value=1.2e+02 Score=29.19 Aligned_cols=37 Identities=8% Similarity=0.102 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCc
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNI 69 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~ 69 (470)
.++.++=+.|++.|+++.|..+.+.+.+..+++..++
T Consensus 104 ~g~~e~L~~Lk~~g~~l~ivTn~~~~~~~~~l~~~~i 140 (272)
T PRK13223 104 PGVRDTLKWLKKQGVEMALITNKPERFVAPLLDQMKI 140 (272)
T ss_pred CCHHHHHHHHHHCCCeEEEEECCcHHHHHHHHHHcCc
Confidence 3444555555555666666666555555555554443
No 119
>TIGR01454 AHBA_synth_RP 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity.
Probab=25.04 E-value=92 Score=28.24 Aligned_cols=17 Identities=6% Similarity=0.085 Sum_probs=8.8
Q ss_pred cChHHHHHHHHHhcCcCE
Q psy14494 54 AIASKEIKKLVIKLNIDA 71 (470)
Q Consensus 54 g~~~~~l~~L~~~~~~~~ 71 (470)
....+.|..|.+. |+..
T Consensus 78 ~g~~~~L~~L~~~-g~~~ 94 (205)
T TIGR01454 78 PGVPELLAELRAD-GVGT 94 (205)
T ss_pred CCHHHHHHHHHHC-CCeE
Confidence 3455666665443 5443
No 120
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=24.86 E-value=5.5e+02 Score=23.88 Aligned_cols=70 Identities=16% Similarity=0.255 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC--hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeC
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI--ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKD 105 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~--~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~ 105 (470)
|..+-++.+.+.+++.|..+.+...+ ....+.+.+...+++.|+....... +..+ +.+.+.||++..++.
T Consensus 24 ~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 24 FFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-----DPLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-----hHHH-HHHHhCCCCEEEECC
Confidence 55666666788899999998887443 2334555555668898876532211 1223 345667999988754
No 121
>PF10406 TAF8_C: Transcription factor TFIID complex subunit 8 C-term ; InterPro: IPR019473 This entry represents the C-terminal region of subunit 8 (also known as TAF8) of the transcription factor TFIID []. The adjacent N-terminal region generally contains a histone fold domain (IPR006565 from INTERPRO). This subunit is one of the key subunits of TFIID, being one of several general cofactors which are typically involved in gene activation to bring about the communication between gene-specific transcription factors and components of the general transcription machinery [].
Probab=24.82 E-value=1.7e+02 Score=20.50 Aligned_cols=27 Identities=7% Similarity=0.106 Sum_probs=18.2
Q ss_pred CCCCCCCChHHHHHHHHHHHHHHHHHh
Q psy14494 441 NYPKPILEHSLSKKNILKRYNFIKNIL 467 (470)
Q Consensus 441 ~YP~pivd~~~~~~~~~~~~~~~~~~~ 467 (470)
-|+.++-|.+.-|+++.+.=+..-+.|
T Consensus 21 ~~~~~~~d~~~~r~~~~~~~r~~e~aL 47 (51)
T PF10406_consen 21 IYNERETDPKKIREKAAEQSRLAEKAL 47 (51)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 578888899888877655544444443
No 122
>KOG0207|consensus
Probab=24.73 E-value=2.4e+02 Score=32.12 Aligned_cols=42 Identities=12% Similarity=0.196 Sum_probs=36.0
Q ss_pred HHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHH
Q psy14494 40 INLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAI 83 (470)
Q Consensus 40 ~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~ 83 (470)
..|+..|++++++.|+....-...+++.|++.|+++- .|.++
T Consensus 733 ~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~aev--~P~~K 774 (951)
T KOG0207|consen 733 AELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAEV--LPEQK 774 (951)
T ss_pred HHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEecc--Cchhh
Confidence 4567789999999999999999999999999999984 56554
No 123
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=24.63 E-value=5.2e+02 Score=23.73 Aligned_cols=69 Identities=6% Similarity=0.088 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC--hH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI--AS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~--~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
|..+-+..+++.++++|..+.+...+ +. +.+..|.. .+++.|+....... ..+.+.+++.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~~dgii~~~~~~~------~~~~~~~~~~~ipvv~~~ 85 (259)
T cd01542 13 STSRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLAR-QKVDGIILLATTIT------DEHREAIKKLNVPVVVVG 85 (259)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC------HHHHHHHhcCCCCEEEEe
Confidence 55677788888999999999887543 32 34555443 58888887633211 134445566688888775
Q ss_pred C
Q psy14494 105 D 105 (470)
Q Consensus 105 ~ 105 (470)
.
T Consensus 86 ~ 86 (259)
T cd01542 86 Q 86 (259)
T ss_pred c
Confidence 3
No 124
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=24.55 E-value=2.4e+02 Score=27.76 Aligned_cols=52 Identities=10% Similarity=0.270 Sum_probs=36.2
Q ss_pred EEEEEEecCCCCCc---cccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHH
Q psy14494 3 VYCVFIFDKNILDP---LRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIASKEI 60 (470)
Q Consensus 3 vl~vfi~dp~~~~~---~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l 60 (470)
|+|+||.+-+.... ... |- .++=.+.|.+--+++.++|++-+++.|-+.+..
T Consensus 34 I~PiFV~eg~~~~~~I~SMP----gv--~r~s~d~l~~~~~~~~~lGi~av~LFgvp~~~~ 88 (330)
T COG0113 34 IYPIFVVEGENIKEEIPSMP----GV--YRYSLDRLVEEAEELVDLGIPAVILFGVPDDSK 88 (330)
T ss_pred eEeEEEecCCCCccccCCCC----Cc--eeccHHHHHHHHHHHHhcCCCEEEEeCCCcccc
Confidence 67999998642211 112 33 344478888888889999999999998775433
No 125
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=24.52 E-value=4.8e+02 Score=24.25 Aligned_cols=72 Identities=19% Similarity=0.352 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHhcC---CC--cEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCc
Q psy14494 29 EFIFKSIIELSINLQNY---DS--DLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGC 98 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~---G~--~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v 98 (470)
.|..+-+..+.+.++++ |. .|.+... +.. +.+..+... +++.|+.... ... ..+..+ +.+++.||
T Consensus 12 ~~~~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~~-~~~--~~~~~l-~~~~~~~i 86 (272)
T cd06300 12 TWRAQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIAQ-GVDAIIINPA-SPT--ALNPVI-EEACEAGI 86 (272)
T ss_pred hHHHHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-Chh--hhHHHH-HHHHHCCC
Confidence 46666777777777777 87 5666643 322 445555444 8998888642 111 112223 34566799
Q ss_pred EEEEEeC
Q psy14494 99 KFFSYKD 105 (470)
Q Consensus 99 ~~~~~~~ 105 (470)
++..++.
T Consensus 87 Pvv~~~~ 93 (272)
T cd06300 87 PVVSFDG 93 (272)
T ss_pred eEEEEec
Confidence 9998864
No 126
>PLN02347 GMP synthetase
Probab=24.31 E-value=4.3e+02 Score=28.46 Aligned_cols=77 Identities=8% Similarity=0.062 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEcC-hHHHHHHHHHh-c--CcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYAI-ASKEIKKLVIK-L--NIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g~-~~~~l~~L~~~-~--~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
.|+-+.++++++.+.+.+.-++-+.|- ...++..|+.+ . ++.+|+.+....+.. +.++.++..+++.||+++.++
T Consensus 213 ~~~~~~i~~i~~~~~~~~~vvvalSGGVDSsvla~l~~~alG~~v~av~id~g~~~~~-E~~~~~~~~a~~lgi~~~vvd 291 (536)
T PLN02347 213 DVLEEQIELIKATVGPDEHVICALSGGVDSTVAATLVHKAIGDRLHCVFVDNGLLRYK-EQERVMETFKRDLHLPVTCVD 291 (536)
T ss_pred hHHHHHHHHHHHHhccCCeEEEEecCChhHHHHHHHHHHHhCCcEEEEEEeCCCCChh-HHHHHHHHHHHHcCCcEEEEe
Confidence 467788899998887665445555553 33455666666 3 466788886555443 344444666677899988776
Q ss_pred Cc
Q psy14494 105 DQ 106 (470)
Q Consensus 105 ~~ 106 (470)
-.
T Consensus 292 ~~ 293 (536)
T PLN02347 292 AS 293 (536)
T ss_pred Cc
Confidence 43
No 127
>PRK08238 hypothetical protein; Validated
Probab=24.23 E-value=1.9e+02 Score=30.60 Aligned_cols=47 Identities=11% Similarity=0.176 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCc-CEEEEeccC
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNI-DAVMINHDY 78 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~-~~V~~~~~~ 78 (470)
.+.+.++=+++++.|.++.+..+.+...+..+++..++ +.|++.++.
T Consensus 74 ~pga~e~L~~lk~~G~~v~LaTas~~~~a~~i~~~lGlFd~Vigsd~~ 121 (479)
T PRK08238 74 NEEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFASDGT 121 (479)
T ss_pred ChhHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCEEEeCCCc
Confidence 35566777778899999999999999999999999996 888887654
No 128
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=23.96 E-value=1.5e+02 Score=27.02 Aligned_cols=46 Identities=20% Similarity=0.215 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCc------CEEEEecc
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNI------DAVMINHD 77 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~------~~V~~~~~ 77 (470)
..++.++=+.|++.|+++.|..+...+.+..+.+.+++ +.|++..+
T Consensus 89 ~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~l~~~~~f~~i~~~~~ 140 (220)
T TIGR03351 89 LPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLGWTVGDDVDAVVCPSD 140 (220)
T ss_pred CCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhhhhhhccCCEEEcCCc
Confidence 34455666777777777777777666655555555443 34555544
No 129
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=23.88 E-value=5.9e+02 Score=25.20 Aligned_cols=66 Identities=17% Similarity=0.215 Sum_probs=48.0
Q ss_pred EEEecCCCCCccccCCCCcHHHHH-HHHHHHHHHHHHHhcC--CCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCC
Q psy14494 6 VFIFDKNILDPLRSQGIIEDRRIE-FIFKSIIELSINLQNY--DSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYE 79 (470)
Q Consensus 6 vfi~dp~~~~~~~~~~~~~~~r~~-Fl~esL~~L~~~L~~~--G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~ 79 (470)
+.|+|| +.. .. ++..+. |....++.+-+.+++. +.+++...|+....+..+++ ++++.+.++....
T Consensus 197 i~i~d~--~~~-~l----sp~~f~ef~~p~~k~i~~~i~~~~~~~~ilh~cg~~~~~~~~~~~-~~~~~~s~d~~~d 265 (338)
T TIGR01464 197 VQIFDS--WAG-AL----SPEDFEEFVLPYLKKIIEEVKARLPNVPVILFAKGAGHLLEELAE-TGADVVGLDWTVD 265 (338)
T ss_pred EEEECC--ccc-cC----CHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEeCCcHHHHHHHHh-cCCCEEEeCCCCC
Confidence 677887 221 23 666655 9999999999999987 56777778888777776665 5888887776543
No 130
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=23.84 E-value=3.8e+02 Score=30.74 Aligned_cols=39 Identities=13% Similarity=0.038 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC
Q psy14494 32 FKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID 70 (470)
Q Consensus 32 ~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~ 70 (470)
.+...+.=++|++.|+.+.++.|+....-..++++.|+.
T Consensus 517 R~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 517 KESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred chhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 344555666778899999999999999999999999996
No 131
>PRK02249 DNA primase large subunit; Validated
Probab=23.68 E-value=1.7e+02 Score=29.48 Aligned_cols=44 Identities=20% Similarity=0.375 Sum_probs=36.7
Q ss_pred hHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHH
Q psy14494 314 PLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFAN 358 (470)
Q Consensus 314 p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~ 358 (470)
||+-+.+..|...+-+.|..|+..++||.. ++++..+-...|..
T Consensus 224 pCm~~l~~~l~~g~~L~h~~R~~l~~FL~~-iG~~~deil~~~~~ 267 (343)
T PRK02249 224 PCMKALLSALQAGENLPHTARFAITSFLLN-IGMSVDEIVELFRN 267 (343)
T ss_pred HHHHHHHHHHHcCCCCChHHHHHHHHHHHh-cCCCHHHHHHHHhh
Confidence 677777777799999999999999999974 78888887777744
No 132
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=23.60 E-value=2.1e+02 Score=23.72 Aligned_cols=46 Identities=11% Similarity=0.050 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhcCCCc---EEEEEcCh-HHHHHHHHHhcCcCEEEEec
Q psy14494 31 IFKSIIELSINLQNYDSD---LIIRYAIA-SKEIKKLVIKLNIDAVMINH 76 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~---L~v~~g~~-~~~l~~L~~~~~~~~V~~~~ 76 (470)
..+.+..+.+.+++.|+. ..+..|++ .+.+..++.+.+++.|++-.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~ 121 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGS 121 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECC
Confidence 466777888888888866 46678999 68999999999999888765
No 133
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=23.44 E-value=3.4e+02 Score=24.30 Aligned_cols=35 Identities=11% Similarity=0.144 Sum_probs=26.5
Q ss_pred HHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC
Q psy14494 36 IELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID 70 (470)
Q Consensus 36 ~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~ 70 (470)
.++=+.|++.|+++.|..+.+.+.+..+.+..++.
T Consensus 112 ~~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~ 146 (197)
T TIGR01548 112 KGLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLE 146 (197)
T ss_pred HHHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCch
Confidence 34445567788899888888888888888887764
No 134
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=23.35 E-value=3.8e+02 Score=21.23 Aligned_cols=62 Identities=16% Similarity=0.119 Sum_probs=42.8
Q ss_pred HHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 35 IIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
+..+++.++++|+++.+......++- .... +++.|+.. |.-+...+.+++.+...++++...
T Consensus 16 ~~ki~~~~~~~~~~~~v~~~~~~~~~-~~~~--~~Diil~~----Pqv~~~~~~i~~~~~~~~~pv~~I 77 (96)
T cd05564 16 VKKMKKAAEKRGIDAEIEAVPESELE-EYID--DADVVLLG----PQVRYMLDEVKKKAAEYGIPVAVI 77 (96)
T ss_pred HHHHHHHHHHCCCceEEEEecHHHHH-HhcC--CCCEEEEC----hhHHHHHHHHHHHhccCCCcEEEc
Confidence 44778889999999988876655533 2233 45666664 666666777887777778888765
No 135
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=23.18 E-value=1.1e+02 Score=27.43 Aligned_cols=20 Identities=15% Similarity=0.212 Sum_probs=11.2
Q ss_pred ChHHHHHHHHHhcCcC-EEEEe
Q psy14494 55 IASKEIKKLVIKLNID-AVMIN 75 (470)
Q Consensus 55 ~~~~~l~~L~~~~~~~-~V~~~ 75 (470)
...+.|..|.+. |+. .|++|
T Consensus 96 ~~~~~L~~L~~~-g~~~~i~Sn 116 (198)
T TIGR01428 96 DVPAGLRALKER-GYRLAILSN 116 (198)
T ss_pred CHHHHHHHHHHC-CCeEEEEeC
Confidence 445667766543 444 45555
No 136
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=23.12 E-value=4.9e+02 Score=23.95 Aligned_cols=72 Identities=18% Similarity=0.193 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.|..+.+..+.+.++++|..+.+... ++. +.+..+.+ .+++.|++... .. .....+-+.+.+.+|++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~~-~~~dgii~~~~-~~---~~~~~~l~~l~~~~ipvv~~ 86 (268)
T cd06323 12 PFFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLIT-RGVDAIIINPT-DS---DAVVPAVKAANEAGIPVFTI 86 (268)
T ss_pred HHHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHHH-cCCCEEEEcCC-Ch---HHHHHHHHHHHHCCCcEEEE
Confidence 46777888888889999999988643 333 34444433 47888777421 11 11112223345678999888
Q ss_pred eC
Q psy14494 104 KD 105 (470)
Q Consensus 104 ~~ 105 (470)
+.
T Consensus 87 ~~ 88 (268)
T cd06323 87 DR 88 (268)
T ss_pred cc
Confidence 54
No 137
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=23.01 E-value=5.5e+02 Score=23.23 Aligned_cols=71 Identities=13% Similarity=0.178 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC--h---HHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI--A---SKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~--~---~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
|..+-...+++.++++|+.|.+.... + .+.+.++++. +++.|+....... ... ..+.+.+.++++..+.
T Consensus 13 ~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~-~~~----~~~~l~~~~ip~v~~~ 86 (264)
T cd01537 13 FFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDLT-APT----IVKLARKAGIPVVLVD 86 (264)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCc-chh----HHHHhhhcCCCEEEec
Confidence 55666677777788899999887542 2 3456666654 7888887542221 111 3455667799998876
Q ss_pred Cc
Q psy14494 105 DQ 106 (470)
Q Consensus 105 ~~ 106 (470)
..
T Consensus 87 ~~ 88 (264)
T cd01537 87 RD 88 (264)
T ss_pred cC
Confidence 54
No 138
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=23.00 E-value=5.7e+02 Score=23.60 Aligned_cols=69 Identities=12% Similarity=0.127 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEcC--hH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYAI--AS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g~--~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
|..+-+..+.+++++.|..+++...+ +. +.+..|... +++.|++...... ..+.+.+++.|+++..++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~------~~~~~~l~~~~iPvv~~~ 85 (268)
T cd06273 13 IFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLER-GVDGLALIGLDHS------PALLDLLARRGVPYVATW 85 (268)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHhc-CCCEEEEeCCCCC------HHHHHHHHhCCCCEEEEc
Confidence 45666677899999999999887432 33 345555554 7888776432111 122335667799988875
Q ss_pred C
Q psy14494 105 D 105 (470)
Q Consensus 105 ~ 105 (470)
.
T Consensus 86 ~ 86 (268)
T cd06273 86 N 86 (268)
T ss_pred C
Confidence 4
No 139
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=22.88 E-value=2.3e+02 Score=26.84 Aligned_cols=50 Identities=10% Similarity=0.129 Sum_probs=39.2
Q ss_pred hHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCcee
Q psy14494 56 ASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQVI 108 (470)
Q Consensus 56 ~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L 108 (470)
+...+.+-++..|++.|..- +||.....+.+.+.+++.|+++..+.+..+
T Consensus 107 ~~~A~~~AL~alg~~RIalv---TPY~~~v~~~~~~~l~~~G~eV~~~~~~~~ 156 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLL---TPYTPETSRPMAQYFAVRGFEIVNFTCLGL 156 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEE---CCCcHHHHHHHHHHHHhCCcEEeeeeccCC
Confidence 44556666777789988775 678888899999999999999988765444
No 140
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=22.73 E-value=3.7e+02 Score=30.27 Aligned_cols=38 Identities=8% Similarity=-0.008 Sum_probs=31.7
Q ss_pred HHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCE
Q psy14494 34 SIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDA 71 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~ 71 (470)
...+.=++|++.|+.+.++.|+....-..++++.|+..
T Consensus 446 ~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~~ 483 (755)
T TIGR01647 446 DTKETIERARHLGVEVKMVTGDHLAIAKETARRLGLGT 483 (755)
T ss_pred hHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCC
Confidence 34455566778899999999999999999999999864
No 141
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=22.73 E-value=92 Score=20.97 Aligned_cols=37 Identities=19% Similarity=0.349 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHH
Q psy14494 315 LIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYF 356 (470)
Q Consensus 315 ~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F 356 (470)
|++|+.+.+.+.||-.-.+|.+.. .+++.-..-..+|
T Consensus 1 Il~aa~~l~~~~G~~~~s~~~Ia~-----~~gvs~~~~y~~f 37 (47)
T PF00440_consen 1 ILEAALELFAEKGYEAVSIRDIAR-----RAGVSKGSFYRYF 37 (47)
T ss_dssp HHHHHHHHHHHHHTTTSSHHHHHH-----HHTSCHHHHHHHC
T ss_pred CHHHHHHHHHHhCHHhCCHHHHHH-----HHccchhhHHHHc
Confidence 689999999999999999999876 5667766666666
No 142
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=22.52 E-value=5.7e+02 Score=23.52 Aligned_cols=70 Identities=10% Similarity=0.067 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEc-ChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeC
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYA-IASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKD 105 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g-~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~ 105 (470)
.|..+-+..+.+.++++|..+.+... +..+.+. .....+++.|+.... ... +..+ ..+.+.++++..++.
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~-~l~~~~vdgii~~~~-~~~----~~~~-~~~~~~~ipvV~~~~ 82 (261)
T cd06272 12 VALTELVTGINQAISKNGYNMNVSITPSLAEAED-LFKENRFDGVIIFGE-SAS----DVEY-LYKIKLAIPVVSYGV 82 (261)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEecccHHHHHH-HHHHcCcCEEEEeCC-CCC----hHHH-HHHHHcCCCEEEEcc
Confidence 46677788888888899999888754 3334444 455568898876532 111 1123 334567899888764
No 143
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=22.36 E-value=6.3e+02 Score=23.39 Aligned_cols=72 Identities=11% Similarity=0.102 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHhc-CCCcEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 30 FIFKSIIELSINLQN-YDSDLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 30 Fl~esL~~L~~~L~~-~G~~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
|..+-+..+.+.+++ .|..+.+..+ ++. +.+..+.+ .+++.|+....- ......+.+.+.+.+|++..+
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~----~~~~~~~~~~l~~~~iPvv~~ 87 (272)
T cd06301 13 FLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFIA-QGVDAIIVVPVD----TAATAPIVKAANAAGIPLVYV 87 (272)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEecCc----hhhhHHHHHHHHHCCCeEEEe
Confidence 556666677777888 8999988754 333 34445444 488888765311 112223344467789999987
Q ss_pred eCc
Q psy14494 104 KDQ 106 (470)
Q Consensus 104 ~~~ 106 (470)
+..
T Consensus 88 ~~~ 90 (272)
T cd06301 88 NRR 90 (272)
T ss_pred cCC
Confidence 653
No 144
>cd00384 ALAD_PBGS Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. They either contain a cysteine-rich zinc binding site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an aspartate-rich magnesium binding site (consensus DXALDX(Y/F)X3G(H/Q)DG). The cyste
Probab=22.26 E-value=3.5e+02 Score=26.77 Aligned_cols=51 Identities=16% Similarity=0.197 Sum_probs=34.0
Q ss_pred EEEEEEecCCCCCccccCCCCcHHHHHHHHHHHHHHHHHHhcCCCcEEEEEcCh
Q psy14494 3 VYCVFIFDKNILDPLRSQGIIEDRRIEFIFKSIIELSINLQNYDSDLIIRYAIA 56 (470)
Q Consensus 3 vl~vfi~dp~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~g~~ 56 (470)
|.|+||.+.......-.+ =+...++=.+.|.+.-+++.++|++=+++.|-+
T Consensus 24 I~PlFV~eg~~~~~~I~s---MPG~~r~s~d~l~~~~~~~~~~Gi~~v~LFgv~ 74 (314)
T cd00384 24 IYPLFVVEGIDEKEEISS---MPGVYRLSVDSLVEEAEELADLGIRAVILFGIP 74 (314)
T ss_pred eeeEEEecCCCCccccCC---CCCceeeCHHHHHHHHHHHHHCCCCEEEEECCC
Confidence 679999986432211000 122344446888888888999999999988864
No 145
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=22.19 E-value=6.4e+02 Score=23.96 Aligned_cols=71 Identities=11% Similarity=0.110 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEecc-C----C---hHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 31 IFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHD-Y----E---PQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~-~----~---~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
-.+-|+..-+.|++.||++-++.. |...-.+.+++.|++.|=.+.. | . ..+..+-....+.+.+.|+.+..
T Consensus 111 ~~~~l~~~i~~L~~~gIrVSLFid-P~~~qi~~A~~~GAd~VELhTG~yA~a~~~~~~~el~~~~~aa~~a~~lGL~VnA 189 (239)
T PRK05265 111 QFDKLKPAIARLKDAGIRVSLFID-PDPEQIEAAAEVGADRIELHTGPYADAKTEAEAAELERIAKAAKLAASLGLGVNA 189 (239)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEeC-CCHHHHHHHHHhCcCEEEEechhhhcCCCcchHHHHHHHHHHHHHHHHcCCEEec
Confidence 356778888888999999888864 4444446788999998865532 1 1 11223333344455566777655
No 146
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=22.19 E-value=4.7e+02 Score=24.80 Aligned_cols=71 Identities=13% Similarity=-0.050 Sum_probs=41.8
Q ss_pred HHHHHHHHhcCCCcEEEEEcChH-HHHHHHHHhcCc--CEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCce
Q psy14494 35 IIELSINLQNYDSDLIIRYAIAS-KEIKKLVIKLNI--DAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQV 107 (470)
Q Consensus 35 L~~L~~~L~~~G~~L~v~~g~~~-~~l~~L~~~~~~--~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~ 107 (470)
++.|++-|++.+.-++.+.|-.. .++..++.+.+. .+|+++....+. .-.+.+++.|+..||+.+.++-..
T Consensus 2 ~~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~~--~e~~~a~~~a~~lgi~~~ii~~~~ 75 (252)
T TIGR00268 2 LENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSISP--RELEDAIIIAKEIGVNHEFVKIDK 75 (252)
T ss_pred hHHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCCH--HHHHHHHHHHHHcCCCEEEEEcHH
Confidence 35677778877666666666433 455566666554 455554322222 122456777888899988776543
No 147
>TIGR02726 phenyl_P_delta phenylphosphate carboxylase, delta subunit. Members of this protein family are the alpha subunit of phenylphosphate carboxylase. Phenol (methyl-benzene) is converted to phenylphosphate, then para-carboxylated by this four-subunit enzyme, with the release of phosphate, to 4-hydroxybenzoate. The enzyme contains neither biotin nor thiamin pyrophosphate. This delta subunit belongs to HAD family hydrolases.
Probab=22.09 E-value=3e+02 Score=24.49 Aligned_cols=51 Identities=16% Similarity=0.097 Sum_probs=37.2
Q ss_pred HhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCc
Q psy14494 42 LQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGC 98 (470)
Q Consensus 42 L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v 98 (470)
|++.|+++.|..+.+...+..+++.+++..++......| ..+..+++..++
T Consensus 46 L~~~Gi~laIiT~k~~~~~~~~l~~lgi~~~f~~~kpkp------~~~~~~~~~l~~ 96 (169)
T TIGR02726 46 LQLCGIDVAIITSKKSGAVRHRAEELKIKRFHEGIKKKT------EPYAQMLEEMNI 96 (169)
T ss_pred HHHCCCEEEEEECCCcHHHHHHHHHCCCcEEEecCCCCH------HHHHHHHHHcCc
Confidence 456799999999999999999999999997775432222 345566655554
No 148
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=22.04 E-value=99 Score=27.28 Aligned_cols=16 Identities=19% Similarity=0.112 Sum_probs=6.4
Q ss_pred hHHHHHHHHHhcCcCEE
Q psy14494 56 ASKEIKKLVIKLNIDAV 72 (470)
Q Consensus 56 ~~~~l~~L~~~~~~~~V 72 (470)
..+.|..| ++.++..+
T Consensus 77 ~~~ll~~l-~~~g~~~~ 92 (188)
T TIGR01489 77 FKEFIAFI-KEHGIDFI 92 (188)
T ss_pred HHHHHHHH-HHcCCcEE
Confidence 33444443 33344433
No 149
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=21.99 E-value=1.7e+02 Score=29.84 Aligned_cols=65 Identities=14% Similarity=0.097 Sum_probs=43.0
Q ss_pred HHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEeccCChHHHHHH-HHHHHHHHHcCcEEEE
Q psy14494 37 ELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRD-KLIKKELKVIGCKFFS 102 (470)
Q Consensus 37 ~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd-~~v~~~l~~~~v~~~~ 102 (470)
-+...|+++||.+.+..++..+.+.+.+++ +-.+||...---|...-.| ++|.+.+.++||++..
T Consensus 117 lf~~tl~~~Gi~v~fvd~~d~~~~~~aI~~-nTkavf~EtigNP~~~v~Die~ia~iAh~~gvpliV 182 (426)
T COG2873 117 LFSHTLKRLGIEVRFVDPDDPENFEAAIDE-NTKAVFAETIGNPGLDVLDIEAIAEIAHRHGVPLIV 182 (426)
T ss_pred HHHHHHHhcCcEEEEeCCCCHHHHHHHhCc-ccceEEEEeccCCCccccCHHHHHHHHHHcCCcEEE
Confidence 355667888988888877777777766665 4455666543234333333 6788888889998754
No 150
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.91 E-value=5.8e+02 Score=23.76 Aligned_cols=73 Identities=15% Similarity=0.155 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEc---ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYA---IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g---~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
.|..+-+..+.+.+++.|..+.+... ++. +.+..+.. .+++.|+.... ... .....++ .+.+.||++..
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~-~~~--~~~~~l~-~~~~~~ipvV~ 87 (271)
T cd06312 13 PFWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIA-AKPDGIVVTIP-DPD--ALDPAIK-RAVAAGIPVIS 87 (271)
T ss_pred cHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCC-ChH--HhHHHHH-HHHHCCCeEEE
Confidence 47778888888899999999988754 332 23444444 48888887532 111 1222333 34567999988
Q ss_pred EeCc
Q psy14494 103 YKDQ 106 (470)
Q Consensus 103 ~~~~ 106 (470)
++..
T Consensus 88 ~~~~ 91 (271)
T cd06312 88 FNAG 91 (271)
T ss_pred eCCC
Confidence 8643
No 151
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=21.90 E-value=1.5e+02 Score=29.44 Aligned_cols=42 Identities=26% Similarity=0.209 Sum_probs=20.3
Q ss_pred HHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcCEEEEe
Q psy14494 34 SIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~ 75 (470)
++.++=+.|++.|.++.|..|........+.++.+++.++.|
T Consensus 185 Ga~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an 226 (322)
T PRK11133 185 GLTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVAN 226 (322)
T ss_pred hHHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEe
Confidence 334444555555555555555444444444444555544443
No 152
>cd00221 Vsr Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches.
Probab=21.78 E-value=1.7e+02 Score=24.33 Aligned_cols=26 Identities=15% Similarity=0.355 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHcCcEEEEEeCc
Q psy14494 81 QAIIRDKLIKKELKVIGCKFFSYKDQ 106 (470)
Q Consensus 81 ~~~~rd~~v~~~l~~~~v~~~~~~~~ 106 (470)
....||+...+.|...|-.+..+++.
T Consensus 88 ~~~~rD~~r~~~L~~~GW~ViRvw~~ 113 (115)
T cd00221 88 RNVERDRRVQAALERLGWRVLRVWEC 113 (115)
T ss_pred HHHHHHHHHHHHHHHCcCEEEEEeCC
Confidence 56789999999999999999888754
No 153
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=21.75 E-value=3.6e+02 Score=25.98 Aligned_cols=68 Identities=12% Similarity=0.180 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhcC-----CCcEEEEEcChHHHHHHHHHhcCcCEEEEe---ccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 32 FKSIIELSINLQNY-----DSDLIIRYAIASKEIKKLVIKLNIDAVMIN---HDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 32 ~esL~~L~~~L~~~-----G~~L~v~~g~~~~~l~~L~~~~~~~~V~~~---~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.+.|.+|.+++++. +..+++. .+.+..|++.+|...+... .+.+|.. +.-.++.+.+++.+|++...
T Consensus 152 ~~~L~~l~~~~~~~~~~~~~~~~v~~----H~af~Y~~~~~gl~~~~~~~~~~~~eps~-~~l~~l~~~ik~~~v~~if~ 226 (282)
T cd01017 152 AKKLEALDQEYRAKLAKAKGKTFVTQ----HAAFGYLARRYGLKQIAIVGVSPEVEPSP-KQLAELVEFVKKSDVKYIFF 226 (282)
T ss_pred HHHHHHHHHHHHHHHhccCCCeEEEe----cccHHHHHHHCCCeEEecccCCCCCCCCH-HHHHHHHHHHHHcCCCEEEE
Confidence 44466565555542 3334443 3588899999999876532 2233333 34456777788899988765
Q ss_pred e
Q psy14494 104 K 104 (470)
Q Consensus 104 ~ 104 (470)
+
T Consensus 227 e 227 (282)
T cd01017 227 E 227 (282)
T ss_pred e
Confidence 4
No 154
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=21.50 E-value=1.6e+02 Score=26.61 Aligned_cols=21 Identities=14% Similarity=0.181 Sum_probs=10.3
Q ss_pred cChHHHHHHHHHhcCcC-EEEEe
Q psy14494 54 AIASKEIKKLVIKLNID-AVMIN 75 (470)
Q Consensus 54 g~~~~~l~~L~~~~~~~-~V~~~ 75 (470)
-...+.|..|.++ |+. .|+++
T Consensus 88 ~g~~~~L~~l~~~-g~~~~i~S~ 109 (213)
T TIGR01449 88 PGVEATLGALRAK-GLRLGLVTN 109 (213)
T ss_pred CCHHHHHHHHHHC-CCeEEEEeC
Confidence 3455666665443 444 34444
No 155
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=21.39 E-value=1.8e+02 Score=24.35 Aligned_cols=42 Identities=21% Similarity=0.139 Sum_probs=30.8
Q ss_pred HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEE
Q psy14494 58 KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKF 100 (470)
Q Consensus 58 ~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~ 100 (470)
..|.+-+.+.|++.|+++..-..+ ..+-.++.+.+.+.|++|
T Consensus 76 ~~la~ra~~~gi~~vvfDrg~~~y-hGrV~a~a~~are~Gl~f 117 (117)
T PRK05593 76 KLIAERAKAKGIKQVVFDRGGYKY-HGRVKALADAAREAGLKF 117 (117)
T ss_pred HHHHHHHHHCCCCEEEEcCCCCcc-cHHHHHHHHHHHHhCCCC
Confidence 346666777899999999753333 567788888888888764
No 156
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=21.32 E-value=3.1e+02 Score=24.27 Aligned_cols=82 Identities=9% Similarity=0.060 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC---EEEEeccCChHHHHHHHHHHHHHHHcCcEEE-EE
Q psy14494 28 IEFIFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID---AVMINHDYEPQAIIRDKLIKKELKVIGCKFF-SY 103 (470)
Q Consensus 28 ~~Fl~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~---~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~-~~ 103 (470)
..++.++|+.|.++--. ...++|..+.+.+...++++++... .++.+.........+-..+.... ..+.++. .+
T Consensus 9 ~~~l~~~l~sl~~q~~~-~~eiiivD~~s~d~t~~~~~~~~~~~~i~~~~~~~n~g~~~~~n~~~~~a~-~~~~d~v~~l 86 (202)
T cd04185 9 LDLLKECLDALLAQTRP-PDHIIVIDNASTDGTAEWLTSLGDLDNIVYLRLPENLGGAGGFYEGVRRAY-ELGYDWIWLM 86 (202)
T ss_pred HHHHHHHHHHHHhccCC-CceEEEEECCCCcchHHHHHHhcCCCceEEEECccccchhhHHHHHHHHHh-ccCCCEEEEe
Confidence 45677788888665322 4567787665555455555554443 23433332223333333343333 2234443 33
Q ss_pred eCceeEcC
Q psy14494 104 KDQVIFEK 111 (470)
Q Consensus 104 ~~~~L~~p 111 (470)
++++++++
T Consensus 87 d~D~~~~~ 94 (202)
T cd04185 87 DDDAIPDP 94 (202)
T ss_pred CCCCCcCh
Confidence 44444444
No 157
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.22 E-value=5.5e+02 Score=23.68 Aligned_cols=72 Identities=14% Similarity=0.190 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.|..+-+..+.+.+++.|..+.+..+ ++. +.+..+. ..+++.|+.... .+ ...+..+.. +++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~-~~--~~~~~~~~~-~~~~~ipvV~~ 86 (267)
T cd06322 12 PFYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPV-DS--KGIRAAIAK-AKKAGIPVITV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Ch--hhhHHHHHH-HHHCCCCEEEE
Confidence 46778888899999999999988754 332 3444444 458998888532 11 111233444 55679999888
Q ss_pred eC
Q psy14494 104 KD 105 (470)
Q Consensus 104 ~~ 105 (470)
+.
T Consensus 87 ~~ 88 (267)
T cd06322 87 DI 88 (267)
T ss_pred cc
Confidence 63
No 158
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=21.21 E-value=2.7e+02 Score=27.48 Aligned_cols=46 Identities=11% Similarity=0.115 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC----EEEEeccC
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID----AVMINHDY 78 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~----~V~~~~~~ 78 (470)
.++.++=++|+++|+++.+..+...+......++.|+. .|+++.+.
T Consensus 149 PgV~EaL~~LkekGikLaIaTS~~Re~v~~~L~~lGLd~YFdvIIs~Gdv 198 (301)
T TIGR01684 149 PRIYDSLTELKKRGCILVLWSYGDRDHVVESMRKVKLDRYFDIIISGGHK 198 (301)
T ss_pred HHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHcCCCcccCEEEECCcc
Confidence 44555555667789999888877777777778888876 46666554
No 159
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.10 E-value=4.3e+02 Score=24.70 Aligned_cols=47 Identities=17% Similarity=0.126 Sum_probs=35.2
Q ss_pred HhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEeCceeEcCCcc
Q psy14494 65 IKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYKDQVIFEKNEI 114 (470)
Q Consensus 65 ~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~~~~L~~p~~i 114 (470)
+..++..|..- +|+-.+.-+...+.++.+|+++..+-+-.|.+--++
T Consensus 114 ~al~a~ri~vl---TPY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~ei 160 (238)
T COG3473 114 NALGAQRISVL---TPYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEI 160 (238)
T ss_pred HhhCcceEEEe---ccchhhhhhHHHHHHHhCCeEEEEeeccCCcccchh
Confidence 45678888765 577777778889999999999988877666554443
No 160
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=21.04 E-value=1.3e+02 Score=27.76 Aligned_cols=17 Identities=18% Similarity=0.147 Sum_probs=7.4
Q ss_pred HHHHHHHHhcCcCEEEEe
Q psy14494 58 KEIKKLVIKLNIDAVMIN 75 (470)
Q Consensus 58 ~~l~~L~~~~~~~~V~~~ 75 (470)
+.|.. +++.|+.-++++
T Consensus 81 e~l~~-l~~~g~~~~IvS 97 (219)
T PRK09552 81 EFVQF-VKENNIPFYVVS 97 (219)
T ss_pred HHHHH-HHHcCCeEEEEC
Confidence 44443 334455544443
No 161
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=20.91 E-value=1.9e+02 Score=24.11 Aligned_cols=41 Identities=12% Similarity=0.127 Sum_probs=29.8
Q ss_pred HHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEE
Q psy14494 59 EIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKF 100 (470)
Q Consensus 59 ~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~ 100 (470)
.|.+-+.+.|++.|+++.. +.-...|-+++.+.+.+.|+.|
T Consensus 74 ~la~ra~~~gi~~vvfDrg-g~~YhGrv~A~a~~aRe~Gl~F 114 (114)
T TIGR00060 74 LVAERLKEKGIKDVVFDRG-GYKYHGRVAALAEAAREAGLNF 114 (114)
T ss_pred HHHHHHHHCCCCEEEEeCC-CCcchHHHHHHHHHHHHhCCCC
Confidence 4566667789999999875 3333577788888888888764
No 162
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=20.83 E-value=6.3e+02 Score=23.46 Aligned_cols=71 Identities=8% Similarity=0.009 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHhcCCCcEEEEEc----ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEE
Q psy14494 30 FIFKSIIELSINLQNYDSDLIIRYA----IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFS 102 (470)
Q Consensus 30 Fl~esL~~L~~~L~~~G~~L~v~~g----~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~ 102 (470)
|..+-+..+.+.++++|..+.+... ++. +.+..+.. .+++.|+.... .. ...+..++ .+.+.||++..
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~-~~--~~~~~~~~-~~~~~~iPvV~ 87 (275)
T cd06320 13 FWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMIN-KGYKGLLFSPI-SD--VNLVPAVE-RAKKKGIPVVN 87 (275)
T ss_pred HHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHH-hCCCEEEECCC-Ch--HHhHHHHH-HHHHCCCeEEE
Confidence 4556667788888889999988632 333 23444444 48888776421 11 11223333 45677999988
Q ss_pred EeC
Q psy14494 103 YKD 105 (470)
Q Consensus 103 ~~~ 105 (470)
++.
T Consensus 88 ~~~ 90 (275)
T cd06320 88 VND 90 (275)
T ss_pred ECC
Confidence 754
No 163
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=20.82 E-value=95 Score=28.78 Aligned_cols=38 Identities=21% Similarity=0.208 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhcCcC
Q psy14494 33 KSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKLNID 70 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~~~~ 70 (470)
.++.++=..|++.|++|-|..+.+...+..+++.+++.
T Consensus 92 ~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~ 129 (220)
T COG0546 92 PGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLA 129 (220)
T ss_pred CCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCc
Confidence 34455555566666666666666666666666665554
No 164
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=20.66 E-value=5.7e+02 Score=23.35 Aligned_cols=72 Identities=15% Similarity=0.166 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEc--ChH---HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRYA--IAS---KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSY 103 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~g--~~~---~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~ 103 (470)
.|..+-+..+++.++++|..+.+... ++. +.+.++... +++.|+....... ..+. ..+.+.+.++++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~---~~~~-~~~~l~~~~ip~V~~ 86 (267)
T cd01536 12 PFWQAMNKGAEAAAKELGVELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSA---ALTP-ALKKANAAGIPVVTV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCch---hHHH-HHHHHHHCCCcEEEe
Confidence 35667777777788889999988754 332 456666665 8898887532111 1111 234455678988887
Q ss_pred eC
Q psy14494 104 KD 105 (470)
Q Consensus 104 ~~ 105 (470)
..
T Consensus 87 ~~ 88 (267)
T cd01536 87 DS 88 (267)
T ss_pred cC
Confidence 54
No 165
>PRK04017 hypothetical protein; Provisional
Probab=20.57 E-value=3.6e+02 Score=23.14 Aligned_cols=42 Identities=17% Similarity=0.284 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHhcCC--CcEEEEEcCh-HHHHHHH-HHhcCcCEEEEec
Q psy14494 32 FKSIIELSINLQNYD--SDLIIRYAIA-SKEIKKL-VIKLNIDAVMINH 76 (470)
Q Consensus 32 ~esL~~L~~~L~~~G--~~L~v~~g~~-~~~l~~L-~~~~~~~~V~~~~ 76 (470)
++.|.++-.+|++.+ ...+|..|.. .+.|.++ +. +..+.++.
T Consensus 6 ~~~~~e~i~~L~e~s~~g~vIVVEGk~D~~~L~~lGv~---~~iI~t~g 51 (132)
T PRK04017 6 YERFEEIIEELKEFSEAGAPIIVEGKRDVESLRKLGVE---GEIIKVSR 51 (132)
T ss_pred HHHHHHHHHHHHHhcCCCCEEEEeCccHHHHHHHcCCC---ccEEEECC
Confidence 344555555555443 2345556754 5666654 22 34555554
No 166
>PF04104 DNA_primase_lrg: Eukaryotic and archaeal DNA primase, large subunit; InterPro: IPR007238 DNA primase is the polymerase that synthesises small RNA primers for the Okazaki fragments made during discontinuous DNA replication. DNA primase is a heterodimer of two subunits, the small subunit Pri1 (48 kDa in yeast), and the large subunit Pri2 (58 kDa in the yeast Saccharomyces cerevisiae) []. Both subunits participate in the formation of the active site, but the ATP binding site is located on the small subunit []. Primase function has also been demonstrated for human and mouse primase subunits [].; GO: 0003896 DNA primase activity, 0006269 DNA replication, synthesis of RNA primer; PDB: 1ZT2_B 3Q36_A 3L9Q_B 2DLA_B 3LGB_B.
Probab=20.40 E-value=98 Score=29.77 Aligned_cols=45 Identities=13% Similarity=0.259 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCChHHHHHHHHh
Q psy14494 314 PLIDSAIIQLNSSGYMHNRLRMVTASFLIKNMGINWKWGENYFANK 359 (470)
Q Consensus 314 p~vDA~mrqL~~tG~mhnr~Rm~~asfl~k~L~idW~~g~~~F~~~ 359 (470)
||+-+.+..|+..+-+.|..|+..++||. .+|++-.+.-.+|...
T Consensus 110 pCMr~l~~~L~~~~hL~h~~R~ql~lFLk-~iGl~~ee~l~f~~~~ 154 (260)
T PF04104_consen 110 PCMRNLHERLRKGHHLKHSGRFQLGLFLK-GIGLSLEEALEFWRSE 154 (260)
T ss_dssp HHHHHHHHHHHHHS---HHHHHHHHHHHH-HTTEECCCHHHCCHHH
T ss_pred hHHHHHHHHHhhCCCCCchhHhhHHHHHH-hcCCCHHHHHHHHHHH
Confidence 67888888889999999999999999996 5788865555544444
No 167
>PRK11175 universal stress protein UspE; Provisional
Probab=20.36 E-value=5.6e+02 Score=24.57 Aligned_cols=73 Identities=18% Similarity=0.028 Sum_probs=46.7
Q ss_pred HHHHHHHHHhcCCCcEEE--E-EcChHHHHHHHHHhcCcCEEEEeccC-ChHHHHH-HHHHHHHHHHcCcEEEEEeCc
Q psy14494 34 SIIELSINLQNYDSDLII--R-YAIASKEIKKLVIKLNIDAVMINHDY-EPQAIIR-DKLIKKELKVIGCKFFSYKDQ 106 (470)
Q Consensus 34 sL~~L~~~L~~~G~~L~v--~-~g~~~~~l~~L~~~~~~~~V~~~~~~-~~~~~~r-d~~v~~~l~~~~v~~~~~~~~ 106 (470)
.|.++.+.++..|++... . .|++.+.|.+.+++.+++-|++-..- ....... -....+.+....|++..+...
T Consensus 70 ~l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~ 147 (305)
T PRK11175 70 WIREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQ 147 (305)
T ss_pred HHHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEeccc
Confidence 345555555666776543 3 58999999999999999999987542 2222111 122244566668888777653
No 168
>PF05822 UMPH-1: Pyrimidine 5'-nucleotidase (UMPH-1); InterPro: IPR006434 This family is a small group of metazoan sequences with sequences from Arabidopsis thaliana (Mouse-ear cress) and rice. The sequences represent pyrimidine 5-nucleotidases, apparently in reference to HSPC233, the Homo sapiens (Human) homologue []. The structure of mouse sequence has been reported []. This group of sequences was originally found during searches for members of the haloacid dehalogenase (HAD) superfamily (IPR005834 from INTERPRO). All of the conserved catalytic motifs [] are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches of that subfamily (IA-ID) as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.; GO: 0000287 magnesium ion binding, 0008253 5'-nucleotidase activity, 0005737 cytoplasm; PDB: 2BDU_B 2G07_A 2G06_A 2G0A_A 2Q4T_A 2G09_A 2G08_A 2VKQ_A 2CN1_A 2JGA_A.
Probab=20.36 E-value=1.2e+02 Score=29.03 Aligned_cols=37 Identities=16% Similarity=0.129 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHhcCCCcEEEEEcChHHHHHHHHHhc
Q psy14494 31 IFKSIIELSINLQNYDSDLIIRYAIASKEIKKLVIKL 67 (470)
Q Consensus 31 l~esL~~L~~~L~~~G~~L~v~~g~~~~~l~~L~~~~ 67 (470)
+.++..+|=+.|.++++|++|+.+---++|.++.++.
T Consensus 91 LRdg~~~~f~~L~~~~IP~lIFSAGlgdvI~~vL~q~ 127 (246)
T PF05822_consen 91 LRDGVEEFFDKLEEHNIPLLIFSAGLGDVIEEVLRQA 127 (246)
T ss_dssp B-BTHHHHHHHHHCTT--EEEEEEEEHHHHHHHHHHT
T ss_pred hhcCHHHHHHHHHhcCCCEEEEeCCcHHHHHHHHHHc
Confidence 4556677778888888888888777677777776664
No 169
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=20.19 E-value=3.5e+02 Score=23.52 Aligned_cols=81 Identities=9% Similarity=0.126 Sum_probs=48.8
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCcEEEE--EcChHHHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEE
Q psy14494 24 EDRRIEFIFKSIIELSINLQNYDSDLIIR--YAIASKEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFF 101 (470)
Q Consensus 24 ~~~r~~Fl~esL~~L~~~L~~~G~~L~v~--~g~~~~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~ 101 (470)
+.++..|+...|++ .|..++.. .-.|++++.+. -+..++.|..+--++. ....-..+.+.|++.|+.-.
T Consensus 25 Hd~gakvia~~l~d-------~GfeVi~~g~~~tp~e~v~aA-~~~dv~vIgvSsl~g~-h~~l~~~lve~lre~G~~~i 95 (143)
T COG2185 25 HDRGAKVIARALAD-------AGFEVINLGLFQTPEEAVRAA-VEEDVDVIGVSSLDGG-HLTLVPGLVEALREAGVEDI 95 (143)
T ss_pred cccchHHHHHHHHh-------CCceEEecCCcCCHHHHHHHH-HhcCCCEEEEEeccch-HHHHHHHHHHHHHHhCCcce
Confidence 55667776666555 58777765 33566666654 4447777777654433 34445667888888998766
Q ss_pred EEeCceeEcCCc
Q psy14494 102 SYKDQVIFEKNE 113 (470)
Q Consensus 102 ~~~~~~L~~p~~ 113 (470)
.+-.-..+++++
T Consensus 96 ~v~~GGvip~~d 107 (143)
T COG2185 96 LVVVGGVIPPGD 107 (143)
T ss_pred EEeecCccCchh
Confidence 633333334443
No 170
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=20.17 E-value=4e+02 Score=25.57 Aligned_cols=45 Identities=16% Similarity=0.269 Sum_probs=38.0
Q ss_pred HHHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 58 KEIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 58 ~~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
+.+.+++++.+++.|+-. ..|+....-+.+.+.|++.||++..|+
T Consensus 55 ~~l~~~l~~~~i~~VIDA--tHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 55 QELREFLKRHSIDILVDA--THPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred HHHHHHHHhcCCCEEEEc--CCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 458889999999977644 468999999999999999999998885
No 171
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=20.15 E-value=4.4e+02 Score=25.72 Aligned_cols=27 Identities=15% Similarity=0.165 Sum_probs=18.0
Q ss_pred ccCChHHHHHHHHHHHHHHHcCcEEEEEe
Q psy14494 76 HDYEPQAIIRDKLIKKELKVIGCKFFSYK 104 (470)
Q Consensus 76 ~~~~~~~~~rd~~v~~~l~~~~v~~~~~~ 104 (470)
-+|.|..++.+ +..+|+++||.+..+.
T Consensus 164 Ie~hp~~~q~e--l~~~~~~~gI~v~Ays 190 (280)
T COG0656 164 IEYHPYLRQPE--LLPFCQRHGIAVEAYS 190 (280)
T ss_pred EEeccCCCcHH--HHHHHHHcCCEEEEEC
Confidence 35556555444 7888888888777763
No 172
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.08 E-value=6.5e+02 Score=23.30 Aligned_cols=72 Identities=11% Similarity=0.067 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHhcCCCcEEEEE----cChHH---HHHHHHHhcCcCEEEEeccCChHHHHHHHHHHHHHHHcCcEEE
Q psy14494 29 EFIFKSIIELSINLQNYDSDLIIRY----AIASK---EIKKLVIKLNIDAVMINHDYEPQAIIRDKLIKKELKVIGCKFF 101 (470)
Q Consensus 29 ~Fl~esL~~L~~~L~~~G~~L~v~~----g~~~~---~l~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~v~~~ 101 (470)
.|..+-+..+.+.++++|..+.+.. +++.. .+..+.. .+++.|+.... . ....+..+ +.+...|+++.
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgvii~~~-~--~~~~~~~l-~~~~~~~ipvV 86 (273)
T cd06310 12 DFWQAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENAIA-RGPDAILLAPT-D--AKALVPPL-KEAKDAGIPVV 86 (273)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHHHH-hCCCEEEEcCC-C--hhhhHHHH-HHHHHCCCCEE
Confidence 4567777888888899999998874 24433 3444433 47898887521 1 11112333 33456789998
Q ss_pred EEeC
Q psy14494 102 SYKD 105 (470)
Q Consensus 102 ~~~~ 105 (470)
.++.
T Consensus 87 ~~~~ 90 (273)
T cd06310 87 LIDS 90 (273)
T ss_pred EecC
Confidence 8754
No 173
>PRK05434 phosphoglyceromutase; Provisional
Probab=20.01 E-value=6.4e+02 Score=26.94 Aligned_cols=74 Identities=11% Similarity=0.141 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhcCCCcEEEE----Ec------ChHHHHHHHHHhcCcCEEEEe-----ccCChHH-HHHHHHHHHHHHHc
Q psy14494 33 KSIIELSINLQNYDSDLIIR----YA------IASKEIKKLVIKLNIDAVMIN-----HDYEPQA-IIRDKLIKKELKVI 96 (470)
Q Consensus 33 esL~~L~~~L~~~G~~L~v~----~g------~~~~~l~~L~~~~~~~~V~~~-----~~~~~~~-~~rd~~v~~~l~~~ 96 (470)
+.|.++-+..++.|..|+++ .| +-.-.|.+++++.|+..|+.| +|+.|.. ..--+.+++.|++.
T Consensus 96 ~~~~~~~~~~~~~~~~lHl~GL~SdggVHsh~~hl~~l~~~a~~~g~~~v~vH~~~DGRD~~p~s~~~~i~~l~~~~~~~ 175 (507)
T PRK05434 96 PALLDAIDKAKKNGGALHLMGLLSDGGVHSHIDHLFALLELAKEEGVKKVYVHAFLDGRDTPPKSALGYLEELEAKLAEL 175 (507)
T ss_pred HHHHHHHHHHHhcCCeEEEEEeccCCCcccHHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCchhHHHHHHHHHHHHHHh
Confidence 46667777777889999997 12 234466777888999888777 4566653 56667888888877
Q ss_pred Cc-EEEEEeCc
Q psy14494 97 GC-KFFSYKDQ 106 (470)
Q Consensus 97 ~v-~~~~~~~~ 106 (470)
|+ ++-++-+.
T Consensus 176 ~~~~iasv~GR 186 (507)
T PRK05434 176 GVGRIASVSGR 186 (507)
T ss_pred CCeeEEEEecc
Confidence 75 66666554
Done!