Query psy2758
Match_columns 72
No_of_seqs 114 out of 134
Neff 4.2
Searched_HMMs 46136
Date Sat Aug 17 00:26:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2898|consensus 99.9 4.3E-23 9.3E-28 158.2 5.8 69 4-72 251-319 (354)
2 PLN02833 glycerol acyltransfer 99.8 1.9E-20 4.2E-25 143.2 7.7 70 3-72 275-344 (376)
3 cd07991 LPLAT_LPCAT1-like Lyso 99.2 4.3E-11 9.3E-16 82.9 7.2 70 3-72 135-205 (211)
4 PLN02499 glycerol-3-phosphate 98.1 4.7E-06 1E-10 67.1 4.5 43 27-69 412-458 (498)
5 PLN02588 glycerol-3-phosphate 98.0 1E-05 2.3E-10 65.5 4.5 43 27-69 452-503 (525)
6 PLN02177 glycerol-3-phosphate 97.9 1.3E-05 2.7E-10 63.8 4.5 41 29-69 427-471 (497)
7 KOG4666|consensus 84.5 0.97 2.1E-05 36.2 2.8 54 16-69 128-183 (412)
8 PHA03324 nuclear egress membra 79.8 0.72 1.6E-05 35.1 0.5 18 19-36 54-71 (274)
9 PLN02901 1-acyl-sn-glycerol-3- 74.5 5.8 0.00013 27.6 3.9 31 33-66 181-211 (214)
10 PHA03323 nuclear egress membra 74.0 1.3 2.8E-05 33.9 0.5 20 18-37 59-79 (272)
11 PF06072 Herpes_US9: Alphaherp 73.6 2.8 6.1E-05 25.7 1.8 16 43-58 4-19 (60)
12 PRK15018 1-acyl-sn-glycerol-3- 73.2 6 0.00013 28.6 3.8 33 33-65 195-229 (245)
13 PF13559 DUF4129: Domain of un 66.6 7.5 0.00016 21.9 2.6 17 43-59 16-32 (72)
14 cd07984 LPLAT_LABLAT-like Lyso 63.5 16 0.00035 23.9 4.1 33 34-66 146-178 (192)
15 smart00545 JmjN Small domain f 60.4 3.4 7.4E-05 23.2 0.3 25 45-70 10-34 (42)
16 PF02757 YLP: YLP motif; Inte 57.8 4 8.7E-05 16.6 0.2 6 37-42 3-8 (9)
17 PF02824 TGS: TGS domain; Int 56.2 8.2 0.00018 22.3 1.5 28 38-65 4-34 (60)
18 PF03732 Retrotrans_gag: Retro 55.9 15 0.00033 21.1 2.6 20 46-65 59-78 (96)
19 cd08061 MPN_NPL4 Mov34/MPN/PAD 54.8 14 0.0003 27.9 2.8 41 31-72 55-98 (274)
20 COG3052 CitD Citrate lyase, ga 53.9 11 0.00023 25.1 1.9 20 53-72 75-94 (98)
21 cd03527 RuBisCO_small Ribulose 50.3 17 0.00036 23.8 2.3 21 37-63 7-27 (99)
22 PTZ00397 macrophage migration 49.9 32 0.00069 21.7 3.6 37 30-69 57-93 (116)
23 PF08410 DUF1737: Domain of un 49.4 20 0.00043 21.2 2.4 17 47-63 11-27 (54)
24 PF00269 SASP: Small, acid-sol 48.9 18 0.0004 21.5 2.2 21 50-70 8-28 (61)
25 PRK09438 nudB dihydroneopterin 46.9 28 0.00062 22.2 3.1 32 35-69 31-62 (148)
26 PF10209 DUF2340: Uncharacteri 46.1 27 0.00058 23.9 2.9 24 46-69 25-48 (122)
27 TIGR02883 spore_cwlD N-acetylm 46.1 40 0.00086 23.1 3.8 33 32-69 101-133 (189)
28 PF08549 SWI-SNF_Ssr4: Fungal 45.4 17 0.00036 31.1 2.2 23 41-63 353-375 (669)
29 PF07485 DUF1529: Domain of Un 45.3 18 0.00038 24.4 1.9 19 44-62 103-121 (123)
30 PF00183 HSP90: Hsp90 protein; 44.9 23 0.00051 28.8 2.9 23 47-69 477-499 (531)
31 TIGR03162 ribazole_cobC alpha- 43.4 29 0.00063 22.6 2.7 18 46-63 113-130 (177)
32 PF05093 CIAPIN1: Cytokine-ind 40.8 12 0.00025 24.8 0.5 14 2-15 70-83 (100)
33 PF03090 Replicase: Replicase 38.7 52 0.0011 22.3 3.5 33 34-66 63-99 (137)
34 PF14740 DUF4471: Domain of un 38.7 26 0.00056 26.7 2.2 44 23-70 240-285 (289)
35 COG3399 Uncharacterized protei 38.5 17 0.00037 25.6 1.1 30 33-65 24-53 (148)
36 COG0406 phoE Broad specificity 37.0 50 0.0011 22.2 3.2 18 47-64 122-139 (208)
37 PRK03352 DNA polymerase IV; Va 36.2 45 0.00097 24.7 3.1 30 35-68 109-138 (346)
38 smart00646 Ami_3 Ami_3. 36.1 96 0.0021 19.0 4.2 35 33-69 27-61 (113)
39 PRK14118 gpmA phosphoglyceromu 35.8 42 0.0009 23.6 2.7 19 45-63 146-164 (227)
40 cd04676 Nudix_Hydrolase_17 Mem 35.6 61 0.0013 19.3 3.1 31 35-68 25-55 (129)
41 TIGR00824 EIIA-man PTS system, 35.3 49 0.0011 21.2 2.8 20 44-63 35-54 (116)
42 cd02636 R3H_sperm-antigen R3H 35.1 47 0.001 20.2 2.5 18 52-69 27-44 (61)
43 PRK03348 DNA polymerase IV; Pr 34.9 1E+02 0.0022 24.2 5.0 34 35-68 106-141 (454)
44 PF00101 RuBisCO_small: Ribulo 34.7 33 0.00072 22.3 1.9 20 38-63 7-26 (99)
45 PF13776 DUF4172: Domain of un 34.7 34 0.00073 21.6 1.9 13 55-67 70-82 (82)
46 PF10820 DUF2543: Protein of u 34.5 37 0.0008 21.8 2.0 21 49-69 45-65 (81)
47 cd01700 PolY_Pol_V_umuC umuC s 33.6 48 0.001 24.5 2.9 34 35-68 99-132 (344)
48 PTZ00130 heat shock protein 90 33.3 45 0.00097 29.1 2.9 24 46-69 737-760 (814)
49 PRK13462 acid phosphatase; Pro 32.5 51 0.0011 22.8 2.7 18 46-63 115-132 (203)
50 PRK03482 phosphoglycerate muta 32.5 63 0.0014 22.0 3.1 19 45-63 117-135 (215)
51 PRK09565 hypothetical protein; 31.8 3.8 8.3E-05 34.0 -3.4 36 37-72 166-207 (533)
52 PRK09184 acyl carrier protein; 31.4 56 0.0012 20.4 2.5 18 51-68 5-22 (89)
53 cd07992 LPLAT_AAK14816-like Ly 31.0 52 0.0011 22.3 2.5 30 32-61 166-195 (203)
54 cd07986 LPLAT_ACT14924-like Ly 30.9 46 0.00099 22.9 2.2 30 31-60 176-208 (210)
55 cd02696 MurNAc-LAA N-acetylmur 30.4 1.2E+02 0.0026 19.8 4.1 32 34-69 88-119 (172)
56 PRK14115 gpmA phosphoglyceromu 30.4 63 0.0014 23.2 3.0 20 43-62 144-163 (247)
57 smart00855 PGAM Phosphoglycera 30.3 73 0.0016 20.3 3.0 19 45-63 113-131 (155)
58 PF04445 SAM_MT: Putative SAM- 30.1 20 0.00044 26.5 0.4 19 32-50 150-168 (234)
59 TIGR03848 MSMEG_4193 probable 30.1 60 0.0013 21.9 2.7 18 46-63 115-132 (204)
60 PRK12276 putative heme peroxid 30.0 2 4.4E-05 32.1 -4.9 37 36-72 155-197 (248)
61 TIGR01258 pgm_1 phosphoglycera 29.9 72 0.0016 22.9 3.2 18 45-62 146-163 (245)
62 PF00159 Hormone_3: Pancreatic 29.8 94 0.002 17.0 2.9 20 39-58 3-22 (36)
63 PRK10742 putative methyltransf 29.8 35 0.00076 25.6 1.6 19 32-50 163-181 (250)
64 KOG2848|consensus 29.5 72 0.0016 24.6 3.3 41 25-67 215-257 (276)
65 PRK14116 gpmA phosphoglyceromu 29.2 79 0.0017 22.2 3.2 19 44-62 146-164 (228)
66 cd04661 MRP_L46 Mitochondrial 29.1 93 0.002 19.7 3.3 31 35-68 26-56 (132)
67 PF01864 DUF46: Putative integ 28.8 52 0.0011 23.4 2.3 20 53-72 156-175 (175)
68 cd04927 ACT_ACR-like_2 Second 28.6 1.3E+02 0.0028 17.7 4.0 35 31-67 39-73 (76)
69 PRK01112 phosphoglyceromutase; 28.6 65 0.0014 22.9 2.7 19 45-63 146-164 (228)
70 cd01701 PolY_Rev1 DNA polymera 28.5 81 0.0018 24.2 3.4 34 35-68 148-183 (404)
71 PF11058 Ral: Antirestriction 28.5 47 0.001 20.4 1.7 24 44-67 37-60 (66)
72 cd04693 Nudix_Hydrolase_34 Mem 28.4 77 0.0017 19.5 2.8 29 36-68 29-58 (127)
73 PRK03609 umuC DNA polymerase V 28.3 86 0.0019 24.0 3.5 34 35-68 101-134 (422)
74 smart00838 EFG_C Elongation fa 28.2 30 0.00065 20.6 0.9 29 39-67 2-30 (85)
75 KOG4020|consensus 28.1 25 0.00054 26.9 0.5 16 1-16 218-233 (257)
76 PRK15472 nucleoside triphospha 28.1 97 0.0021 19.5 3.3 31 35-68 31-61 (141)
77 PRK08172 putative acyl carrier 28.0 42 0.0009 20.5 1.5 17 52-68 4-20 (82)
78 PRK15004 alpha-ribazole phosph 27.5 71 0.0015 21.6 2.7 18 46-63 117-134 (199)
79 PF01996 F420_ligase: F420-0:G 27.3 54 0.0012 23.7 2.2 20 48-67 130-149 (228)
80 TIGR02048 gshA_cyano glutamate 27.1 1.5E+02 0.0032 23.1 4.7 44 9-62 150-193 (376)
81 COG2093 DNA-directed RNA polym 27.1 37 0.0008 21.0 1.1 11 58-68 44-54 (64)
82 COG3914 Spy Predicted O-linked 27.1 46 0.001 28.3 2.0 28 39-70 532-559 (620)
83 PRK14133 DNA polymerase IV; Pr 26.8 88 0.0019 23.2 3.3 32 35-68 103-134 (347)
84 cd00424 PolY Y-family of DNA p 26.6 89 0.0019 23.1 3.3 34 35-68 99-134 (343)
85 PRK14119 gpmA phosphoglyceromu 26.5 92 0.002 21.8 3.2 19 45-63 147-165 (228)
86 cd02640 R3H_NRF R3H domain of 26.3 91 0.002 18.4 2.7 18 52-69 28-45 (60)
87 cd01514 Elongation_Factor_C El 26.2 38 0.00082 19.7 1.0 28 40-67 1-28 (79)
88 PF07687 M20_dimer: Peptidase 25.9 1.4E+02 0.003 17.6 3.5 27 32-64 81-107 (111)
89 PRK04013 argD acetylornithine/ 25.7 61 0.0013 24.7 2.3 30 36-66 334-363 (364)
90 PF05021 NPL4: NPL4 family; I 25.6 69 0.0015 24.6 2.6 40 32-72 21-63 (306)
91 PTZ00272 heat shock protein 83 25.6 72 0.0016 27.2 2.9 24 46-69 649-672 (701)
92 PRK02406 DNA polymerase IV; Va 25.5 1.9E+02 0.0042 21.3 4.9 34 35-68 95-129 (343)
93 COG5636 Uncharacterized conser 25.3 29 0.00063 26.6 0.5 16 1-16 240-255 (284)
94 PRK00745 4-oxalocrotonate taut 25.3 1.2E+02 0.0027 16.6 3.0 32 34-68 4-35 (62)
95 PF15201 Rod_cone_degen: Progr 25.1 17 0.00038 21.6 -0.6 13 51-63 17-29 (54)
96 PRK14120 gpmA phosphoglyceromu 24.9 1E+02 0.0022 22.3 3.2 18 45-62 148-165 (249)
97 cd04673 Nudix_Hydrolase_15 Mem 24.7 1.2E+02 0.0026 18.0 3.1 30 36-68 26-55 (122)
98 PF14528 LAGLIDADG_3: LAGLIDAD 24.6 84 0.0018 18.0 2.3 20 49-69 29-48 (77)
99 PF00317 Ribonuc_red_lgN: Ribo 24.6 81 0.0018 19.0 2.3 19 47-65 25-43 (83)
100 PRK07079 hypothetical protein; 24.6 1.5E+02 0.0032 22.8 4.2 26 33-64 328-353 (469)
101 PF00300 His_Phos_1: Histidine 24.4 69 0.0015 19.7 2.0 18 46-63 118-135 (158)
102 PF08883 DOPA_dioxygen: Dopa 4 24.4 1.2E+02 0.0026 19.9 3.3 25 34-66 3-27 (104)
103 cd04696 Nudix_Hydrolase_37 Mem 24.3 1E+02 0.0022 18.9 2.8 31 35-68 26-56 (125)
104 PRK01810 DNA polymerase IV; Va 23.8 1.1E+02 0.0023 23.3 3.3 34 35-68 107-140 (407)
105 PF08002 DUF1697: Protein of u 23.8 82 0.0018 21.0 2.4 23 46-68 49-71 (137)
106 cd03425 MutT_pyrophosphohydrol 23.7 1.4E+02 0.0029 17.5 3.2 30 36-68 29-58 (124)
107 cd07983 LPLAT_DUF374-like Lyso 23.6 1.7E+02 0.0037 19.3 4.0 31 33-64 156-186 (189)
108 cd04689 Nudix_Hydrolase_30 Mem 23.5 1.4E+02 0.0031 18.2 3.3 30 36-68 24-53 (125)
109 PTZ00123 phosphoglycerate muta 23.3 94 0.002 22.0 2.8 17 45-61 134-150 (236)
110 CHL00124 acpP acyl carrier pro 22.9 95 0.0021 18.1 2.3 19 50-68 3-21 (82)
111 KOG0420|consensus 22.5 70 0.0015 23.4 2.0 16 48-63 157-172 (184)
112 PRK03858 DNA polymerase IV; Va 22.4 87 0.0019 23.5 2.6 34 35-68 100-134 (396)
113 PF13866 zf-SAP30: SAP30 zinc- 22.3 62 0.0013 20.7 1.5 15 50-64 27-41 (78)
114 COG3480 SdrC Predicted secrete 22.3 1.2E+02 0.0027 24.1 3.4 39 23-61 68-106 (342)
115 cd04667 Nudix_Hydrolase_10 Mem 22.2 1.6E+02 0.0034 17.7 3.3 31 35-68 21-51 (112)
116 cd04682 Nudix_Hydrolase_23 Mem 22.2 1.5E+02 0.0033 18.1 3.3 31 35-68 29-59 (122)
117 PRK13463 phosphatase PhoE; Pro 21.8 99 0.0021 21.1 2.6 18 46-63 119-136 (203)
118 COG3688 Predicted RNA-binding 21.8 1.5E+02 0.0032 21.6 3.5 31 31-61 52-94 (173)
119 cd04680 Nudix_Hydrolase_21 Mem 21.8 1.6E+02 0.0035 17.5 3.3 31 36-69 24-54 (120)
120 PRK10546 pyrimidine (deoxy)nuc 21.7 1.6E+02 0.0035 18.0 3.4 31 35-68 30-60 (135)
121 PF02023 SCAN: SCAN domain; I 21.7 1.1E+02 0.0024 19.3 2.6 19 43-61 13-31 (95)
122 PF01520 Amidase_3: N-acetylmu 21.4 77 0.0017 20.6 1.9 35 32-68 85-119 (175)
123 PF14223 UBN2: gag-polypeptide 21.4 84 0.0018 19.4 2.0 21 43-63 36-56 (119)
124 cd00673 AlaRS_core Alanyl-tRNA 21.4 49 0.0011 24.8 1.0 25 1-29 85-109 (232)
125 PF02093 Gag_p30: Gag P30 core 21.3 55 0.0012 24.3 1.3 30 28-63 124-153 (211)
126 CHL00130 rbcS ribulose-1,5-bis 21.3 94 0.002 21.8 2.4 21 37-63 9-29 (138)
127 PF02033 RBFA: Ribosome-bindin 21.2 93 0.002 19.3 2.2 18 54-71 67-84 (104)
128 PRK02812 ribose-phosphate pyro 21.1 64 0.0014 24.7 1.6 37 27-67 1-43 (330)
129 PF07315 DUF1462: Protein of u 20.8 61 0.0013 21.4 1.3 26 34-59 38-63 (93)
130 cd04664 Nudix_Hydrolase_7 Memb 20.7 1.2E+02 0.0025 18.7 2.5 31 35-68 28-58 (129)
131 PF03610 EIIA-man: PTS system 20.5 1.3E+02 0.0029 18.7 2.8 19 45-63 35-53 (116)
132 cd03586 PolY_Pol_IV_kappa DNA 20.5 1.5E+02 0.0033 21.4 3.4 34 35-68 98-132 (334)
133 PF00817 IMS: impB/mucB/samB f 20.4 92 0.002 20.2 2.1 21 48-68 112-132 (149)
134 cd04691 Nudix_Hydrolase_32 Mem 20.3 1.6E+02 0.0034 18.1 3.0 32 35-69 27-58 (117)
135 PRK09697 protein secretion pro 20.1 94 0.002 21.6 2.1 18 46-63 119-136 (139)
136 PF00679 EFG_C: Elongation fac 20.1 14 0.0003 22.4 -1.8 29 39-67 3-31 (89)
137 PF01559 Zein: Zein seed stora 20.1 87 0.0019 23.8 2.1 28 37-64 15-42 (246)
No 1
>KOG2898|consensus
Probab=99.88 E-value=4.3e-23 Score=158.21 Aligned_cols=69 Identities=59% Similarity=1.058 Sum_probs=67.5
Q ss_pred ccccccccccCCChhHHHHHHHHhhcceeEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 4 ICRFGDAFWNSSKYSMTHYLYMMMTSWAIVADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 4 ~~~fgD~fWns~~~s~~~yl~~lMTsW~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
.++|||+||||+++||.+|++++||||++|||||||||++|.++||+.+||+|||.+||+++|++++.|
T Consensus 251 ~~~~~~~f~~s~~~s~~~~l~~~~ts~~~v~~i~~l~~~~r~~~et~t~~a~~v~~~ig~~~gl~~~~~ 319 (354)
T KOG2898|consen 251 DPRFGDAFWNSPELSFTRYLLELMTSWAIVCDIWYLPPMRRDNDETATQFANRVKSLIGKSAGLKDLEW 319 (354)
T ss_pred CccccccccCCccccHHHHHHHHHhhhheeeeeeecccEEeecccchhHHHHHHHHHHHHhhCCcccCc
Confidence 478999999999999999999999999999999999999999999999999999999999999999987
No 2
>PLN02833 glycerol acyltransferase family protein
Probab=99.82 E-value=1.9e-20 Score=143.25 Aligned_cols=70 Identities=50% Similarity=0.825 Sum_probs=67.6
Q ss_pred CccccccccccCCChhHHHHHHHHhhcceeEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 3 GICRFGDAFWNSSKYSMTHYLYMMMTSWAIVADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 3 ~~~~fgD~fWns~~~s~~~yl~~lMTsW~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
.++.|+|+|||+.+.||+.|++++|++|+++|+|+||||+.++++|++.+||+|||++||+++|+.++||
T Consensus 275 y~~~~~~~fW~s~~~s~~~~l~~ll~~~~~~v~V~~LpPi~~~~~e~~~efA~rv~~~Ia~~lgi~~~~w 344 (376)
T PLN02833 275 YNKIFVDAFWNSRKQSFTMHLLRLMTSWAVVCDVWYLEPQTLRPGETPIEFAERVRDMIAKRAGLKKVPW 344 (376)
T ss_pred ecCcccccccCCCCccHHHhHHHHhCCCceEEEEEECCCcCCCCCCCHHHHHHHHHHHHHHhcCCCCCCC
Confidence 4577899999999999999999999999999999999999999999999999999999999999999999
No 3
>cd07991 LPLAT_LPCAT1-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LPCAT1-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lysophosphatidylcholine acyltransferase 1 (LPCAT-1), glycerol-3-phosphate acyltransferase 3 (GPAT3), and similar sequences.
Probab=99.22 E-value=4.3e-11 Score=82.92 Aligned_cols=70 Identities=40% Similarity=0.607 Sum_probs=64.4
Q ss_pred CccccccccccCCChhHHHHHHHHhhcceeEEEEEEeCCccC-CCCCCHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 3 GICRFGDAFWNSSKYSMTHYLYMMMTSWAIVADVWYLPPMFQ-GQGENAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 3 ~~~~fgD~fWns~~~s~~~yl~~lMTsW~~V~dV~yLpp~~r-~~~E~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
|...+...+|++...+++.|+++++..+...++|.||||+.. .++|+..+|+++||++|++.+|+..++|
T Consensus 135 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~v~~l~pi~~~~~~~~~~~l~~~v~~~i~~~l~~~~~~~ 205 (211)
T cd07991 135 YPNKFVDAFWNSSGYSSLMYLFRLLTQPANVLEVEFLPVYTPSEEGEDPKEFANRVRLIMANKLGLPATDW 205 (211)
T ss_pred ecCccCCcccCCCCccHHHHHHHHhCCcceEEEEEECCCcccccCCCCHHHHHHHHHHHHHHhcCCCccCC
Confidence 455677889999888888999999999999999999999998 7899999999999999999999998876
No 4
>PLN02499 glycerol-3-phosphate acyltransferase
Probab=98.07 E-value=4.7e-06 Score=67.06 Aligned_cols=43 Identities=19% Similarity=0.196 Sum_probs=38.6
Q ss_pred hhcceeEEEEEEeCCccCC----CCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 27 MTSWAIVADVWYLPPMFQG----QGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 27 MTsW~~V~dV~yLpp~~r~----~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+-.-..+|+|.|||++.++ .+++++||||+||.+||+++|.+-
T Consensus 412 ~mnP~p~y~v~fL~~~~~~~t~~~g~s~~evan~vQ~~la~~Lgfec 458 (498)
T PLN02499 412 FMNPRPVYEVTFLNQLPVEATCSSGKSPHDVANYVQRILAATLGFEC 458 (498)
T ss_pred eecCCceEEEEEcCCCChhhccCCCCChHHHHHHHHHHHHHHhCCcc
Confidence 3366899999999999997 799999999999999999999763
No 5
>PLN02588 glycerol-3-phosphate acyltransferase
Probab=97.95 E-value=1e-05 Score=65.53 Aligned_cols=43 Identities=21% Similarity=0.159 Sum_probs=37.2
Q ss_pred hhcceeEEEEEEeCCccC------CC---CCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 27 MTSWAIVADVWYLPPMFQ------GQ---GENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 27 MTsW~~V~dV~yLpp~~r------~~---~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+-.-.++|||.|||++.+ +. +|+++||||+||..||+.+|.+-
T Consensus 452 l~nP~p~y~V~fL~~v~~~~e~~~~~p~~g~s~~evAn~VQ~~iA~~LG~e~ 503 (525)
T PLN02588 452 LLNPFPSYTVQLLDPVSGSSSSTCQDPDNGKLKFEVANHVQHEIGNALGFEC 503 (525)
T ss_pred EecCCceEEEEEcCcCCchhhhcccCcccCCChHHHHHHHHHHHHHhhCcee
Confidence 446688999999999997 31 69999999999999999999864
No 6
>PLN02177 glycerol-3-phosphate acyltransferase
Probab=97.93 E-value=1.3e-05 Score=63.85 Aligned_cols=41 Identities=15% Similarity=0.225 Sum_probs=37.5
Q ss_pred cceeEEEEEEeCCccCCC----CCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 29 SWAIVADVWYLPPMFQGQ----GENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 29 sW~~V~dV~yLpp~~r~~----~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
.-..+++|.||||+.+++ ++++.|+||+||++||+++|.+-
T Consensus 427 ~p~~~y~V~fL~~l~~~~~~~~~~~~~evAn~Vq~~i~~~lg~~~ 471 (497)
T PLN02177 427 NPRPTYEITFLNQLPKELTCKGGKSPIEVANYIQRVLAGTLGFEC 471 (497)
T ss_pred CCCceEEEEECCCCChhhcccCCCCHHHHHHHHHHHHHHhhCcee
Confidence 568999999999999985 89999999999999999999764
No 7
>KOG4666|consensus
Probab=84.51 E-value=0.97 Score=36.16 Aligned_cols=54 Identities=4% Similarity=0.029 Sum_probs=43.7
Q ss_pred ChhHHHHHHHHhhcceeEEEEEEeCCccCCCCC--CHHHHHHHHHHHHHhhCCCcc
Q psy2758 16 KYSMTHYLYMMMTSWAIVADVWYLPPMFQGQGE--NAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 16 ~~s~~~yl~~lMTsW~~V~dV~yLpp~~r~~~E--~~~eFA~RVk~~IA~~~gl~~ 69 (72)
++.+++.+.-+.-...+++.++|+|...+.++| ++.-||+.|+..+|.++|+..
T Consensus 128 ~~~~v~~~~~~~~~l~~~~~~~~i~~~~P~~ee~~d~~~~at~v~~~maealg~~v 183 (412)
T KOG4666|consen 128 RTVIVRSGRFLSRVLLFVFGFYWIHESCPDRDSDMDSNPKTTSTEINMAEALGTEV 183 (412)
T ss_pred cchHHHHHHHHHHHHHhheeEEEEeccCCChhhhcCCcccchhHHHHHHHhhCCCC
Confidence 345666666666678899999999999985554 677899999999999999864
No 8
>PHA03324 nuclear egress membrane protein UL34; Provisional
Probab=79.84 E-value=0.72 Score=35.06 Aligned_cols=18 Identities=17% Similarity=0.362 Sum_probs=15.6
Q ss_pred HHHHHHHHhhcceeEEEE
Q psy2758 19 MTHYLYMMMTSWAIVADV 36 (72)
Q Consensus 19 ~~~yl~~lMTsW~~V~dV 36 (72)
-..|++|+|+||+.|+|-
T Consensus 54 P~EYILrlM~swa~v~dp 71 (274)
T PHA03324 54 PAEYILEAMNSFLNIGEA 71 (274)
T ss_pred cHHHHHHHHHhhhcCCCc
Confidence 378999999999998854
No 9
>PLN02901 1-acyl-sn-glycerol-3-phosphate acyltransferase
Probab=74.53 E-value=5.8 Score=27.58 Aligned_cols=31 Identities=19% Similarity=0.263 Sum_probs=26.8
Q ss_pred EEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCC
Q psy2758 33 VADVWYLPPMFQGQGENAVEFASRVKRAISKQGG 66 (72)
Q Consensus 33 V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~g 66 (72)
-+.|.++||... ++..++++.|++.|.++++
T Consensus 181 ~i~v~~~~pi~~---~~~~~l~~~~~~~i~~~~~ 211 (214)
T PLN02901 181 SVKVVIHPPIEG---SDADELCNEARKVIAESLV 211 (214)
T ss_pred eEEEEECCCcCC---CCHHHHHHHHHHHHHHHhh
Confidence 377999999985 5789999999999998765
No 10
>PHA03323 nuclear egress membrane protein UL34; Provisional
Probab=74.04 E-value=1.3 Score=33.93 Aligned_cols=20 Identities=30% Similarity=0.584 Sum_probs=16.5
Q ss_pred hHHHHHHHHhhcceeE-EEEE
Q psy2758 18 SMTHYLYMMMTSWAIV-ADVW 37 (72)
Q Consensus 18 s~~~yl~~lMTsW~~V-~dV~ 37 (72)
--+.|++|+|++|+-+ ||=|
T Consensus 59 fP~EYvlr~M~~wa~~~cdpy 79 (272)
T PHA03323 59 FPVEYVLRLMADWADVPCDPY 79 (272)
T ss_pred ccHHHHHHHHHHHhcCCCCce
Confidence 3589999999999987 6643
No 11
>PF06072 Herpes_US9: Alphaherpesvirus tegument protein US9; InterPro: IPR009278 This family consists of several US9 and related proteins from the Alphaherpesviruses. The function of the US9 protein is unknown although in Bovine herpesvirus 5 Us9 is essential for the anterograde spread of the virus from the olfactory mucosa to the bulb [].; GO: 0019033 viral tegument
Probab=73.58 E-value=2.8 Score=25.66 Aligned_cols=16 Identities=38% Similarity=0.486 Sum_probs=13.5
Q ss_pred cCCCCCCHHHHHHHHH
Q psy2758 43 FQGQGENAVEFASRVK 58 (72)
Q Consensus 43 ~r~~~E~~~eFA~RVk 58 (72)
+-.+||+|.+|-.||-
T Consensus 4 SESDnETA~~FL~RvG 19 (60)
T PF06072_consen 4 SESDNETATEFLRRVG 19 (60)
T ss_pred CccccccHHHHHHHHh
Confidence 3468999999999984
No 12
>PRK15018 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional
Probab=73.24 E-value=6 Score=28.61 Aligned_cols=33 Identities=21% Similarity=0.293 Sum_probs=27.1
Q ss_pred EEEEEEeCCccCCC--CCCHHHHHHHHHHHHHhhC
Q psy2758 33 VADVWYLPPMFQGQ--GENAVEFASRVKRAISKQG 65 (72)
Q Consensus 33 V~dV~yLpp~~r~~--~E~~~eFA~RVk~~IA~~~ 65 (72)
...|.++||....+ .++..+++++|+++|+++.
T Consensus 195 ~i~v~~~~PI~~~~~~~~~~~~l~~~v~~~i~~~~ 229 (245)
T PRK15018 195 LVIVEMLPPIDVSQYGKDQVRELAAHCRSIMEQKI 229 (245)
T ss_pred eEEEEEcCCCcCCCCChhhHHHHHHHHHHHHHHHH
Confidence 56799999999854 3667899999999999853
No 13
>PF13559 DUF4129: Domain of unknown function (DUF4129)
Probab=66.62 E-value=7.5 Score=21.91 Aligned_cols=17 Identities=24% Similarity=0.350 Sum_probs=14.4
Q ss_pred cCCCCCCHHHHHHHHHH
Q psy2758 43 FQGQGENAVEFASRVKR 59 (72)
Q Consensus 43 ~r~~~E~~~eFA~RVk~ 59 (72)
.+.++||+.||+.|+..
T Consensus 16 ~~~~~~T~~E~~~~l~~ 32 (72)
T PF13559_consen 16 PRRPSETPREYARRLAQ 32 (72)
T ss_pred CCCCCcCHHHHHHHHHH
Confidence 45689999999999954
No 14
>cd07984 LPLAT_LABLAT-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lipid A biosynthesis lauroyl/myristoyl (LABLAT, HtrB) acyltransferases and similar proteins.
Probab=63.50 E-value=16 Score=23.90 Aligned_cols=33 Identities=18% Similarity=0.226 Sum_probs=27.8
Q ss_pred EEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCC
Q psy2758 34 ADVWYLPPMFQGQGENAVEFASRVKRAISKQGG 66 (72)
Q Consensus 34 ~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~g 66 (72)
+.|.+.+|....+.++..+.+.++.+.|.+...
T Consensus 146 ~~i~~~~~i~~~~~~~~~~~~~~~~~~lE~~i~ 178 (192)
T cd07984 146 YRIEFEPPLENPPSEDVEEDTQRLNDALEAAIR 178 (192)
T ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 788899999887789999999999888876544
No 15
>smart00545 JmjN Small domain found in the jumonji family of transcription factors. To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).
Probab=60.42 E-value=3.4 Score=23.18 Aligned_cols=25 Identities=8% Similarity=0.333 Sum_probs=20.9
Q ss_pred CCCCCHHHHHHHHHHHHHhhCCCccC
Q psy2758 45 GQGENAVEFASRVKRAISKQGGLVDL 70 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~~~gl~~l 70 (72)
+|-+|+++|.++|.. +|++.|+..+
T Consensus 10 eEF~Dp~~yi~~i~~-~~~~yGi~KI 34 (42)
T smart00545 10 EEFKDPLAYISKIRP-QAEKYGICKV 34 (42)
T ss_pred HHHHCHHHHHHHHHH-HHhhCCEEEE
Confidence 456799999999999 6999998754
No 16
>PF02757 YLP: YLP motif; InterPro: IPR004019 The YLP motif is found in one or several copies in various Drosophila proteins. Its function is unknown, however the presence of completely conserved tyrosine residues and its presence in the human Erbb-2 and ErbB-4 receptor protein-tyrosine kinases (2.7.10.1 from EC) may suggest it could be a substrate for tyrosine kinases. ErbBs (1-4) are single-pass transmembrane proteins that activate a wide variety of signalling pathways, including those involved in proliferation, migration, differentiation, survival, and apoptosis; they are frequently misregulated in cancer []. ErbB-2 is an essential component of a neuregulin-receptor complex, although neuregulins do not interact with it alone. ErbB-4 specifically binds and is activated by neuregulins, NRG-2, NRG-3, heparin-binding EGF-like growth factor, betacellulin and NTAK [].
Probab=57.80 E-value=4 Score=16.58 Aligned_cols=6 Identities=67% Similarity=1.348 Sum_probs=4.9
Q ss_pred EEeCCc
Q psy2758 37 WYLPPM 42 (72)
Q Consensus 37 ~yLpp~ 42 (72)
.||||.
T Consensus 3 eYLpP~ 8 (9)
T PF02757_consen 3 EYLPPV 8 (9)
T ss_pred cccCCC
Confidence 589996
No 17
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=56.19 E-value=8.2 Score=22.28 Aligned_cols=28 Identities=21% Similarity=0.437 Sum_probs=22.6
Q ss_pred EeCCccC---CCCCCHHHHHHHHHHHHHhhC
Q psy2758 38 YLPPMFQ---GQGENAVEFASRVKRAISKQG 65 (72)
Q Consensus 38 yLpp~~r---~~~E~~~eFA~RVk~~IA~~~ 65 (72)
|||+-+. .++.++.+||..+.+.+|+++
T Consensus 4 ~lpdG~~~~~~~g~T~~d~A~~I~~~l~~~~ 34 (60)
T PF02824_consen 4 YLPDGSIKELPEGSTVLDVAYSIHSSLAKRA 34 (60)
T ss_dssp EETTSCEEEEETTBBHHHHHHHHSHHHHHCE
T ss_pred ECCCCCeeeCCCCCCHHHHHHHHCHHHHhhe
Confidence 5666554 678999999999999999854
No 18
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=55.86 E-value=15 Score=21.06 Aligned_cols=20 Identities=15% Similarity=0.307 Sum_probs=17.5
Q ss_pred CCCCHHHHHHHHHHHHHhhC
Q psy2758 46 QGENAVEFASRVKRAISKQG 65 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~~~ 65 (72)
++|+..+|.+|.++++....
T Consensus 59 ~~esv~~y~~rf~~l~~~~~ 78 (96)
T PF03732_consen 59 GNESVREYVNRFRELARRAP 78 (96)
T ss_pred cCCcHHHHHHHHHHHHHHCC
Confidence 79999999999988877655
No 19
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain. Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=54.80 E-value=14 Score=27.86 Aligned_cols=41 Identities=27% Similarity=0.289 Sum_probs=27.7
Q ss_pred eeEEEEEEeCCccCCCCC---CHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 31 AIVADVWYLPPMFQGQGE---NAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 31 ~~V~dV~yLpp~~r~~~E---~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
-.+++--|-|||.-.++. .+.++.+.| ..||+.+||..+=|
T Consensus 55 ka~VeaIYEPPQ~~~~d~~~~l~d~~~~~v-d~iA~~lGL~~VG~ 98 (274)
T cd08061 55 KAVVEAIYEPPQEGTPDGFELLEDPNADTV-DAIAAALGLERVGW 98 (274)
T ss_pred EEEEEEEECCCccCCCCCeEEccchhhhHH-HHHHHHcCCeEEEE
Confidence 478899999999543211 012444555 78999999987644
No 20
>COG3052 CitD Citrate lyase, gamma subunit [Energy production and conversion]
Probab=53.91 E-value=11 Score=25.08 Aligned_cols=20 Identities=30% Similarity=0.732 Sum_probs=17.6
Q ss_pred HHHHHHHHHHhhCCCccCCC
Q psy2758 53 FASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 53 FA~RVk~~IA~~~gl~~l~W 72 (72)
.-.||+.+.++.+|..+++|
T Consensus 75 l~AR~~Aav~RA~~~~~~~w 94 (98)
T COG3052 75 LRARVEAAVARAAGIPALPW 94 (98)
T ss_pred HHHHHHHHHHHHccCCCCCh
Confidence 34689999999999999998
No 21
>cd03527 RuBisCO_small Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.
Probab=50.26 E-value=17 Score=23.84 Aligned_cols=21 Identities=33% Similarity=0.584 Sum_probs=17.5
Q ss_pred EEeCCccCCCCCCHHHHHHHHHHHHHh
Q psy2758 37 WYLPPMFQGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 37 ~yLpp~~r~~~E~~~eFA~RVk~~IA~ 63 (72)
-||||++ ..|-++-|+.+|++
T Consensus 7 sylp~lt------~~~i~~QI~yll~q 27 (99)
T cd03527 7 SYLPPLT------DEQIAKQIDYIISN 27 (99)
T ss_pred ccCCCCC------HHHHHHHHHHHHhC
Confidence 4899997 66788889998886
No 22
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=49.87 E-value=32 Score=21.74 Aligned_cols=37 Identities=8% Similarity=0.037 Sum_probs=29.6
Q ss_pred ceeEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 30 WAIVADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 30 W~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
=+.+++|......+ .|...+|+.++=+.+++++|+..
T Consensus 57 p~a~v~i~~~g~~~---~e~k~~l~~~i~~~l~~~lgi~~ 93 (116)
T PTZ00397 57 GCCFVRVTSIGGIS---RSNNSSIAAAITKILASHLKVKS 93 (116)
T ss_pred ceEEEEEEEecCCC---HHHHHHHHHHHHHHHHHHhCcCc
Confidence 46677888775543 57788999999999999999864
No 23
>PF08410 DUF1737: Domain of unknown function (DUF1737); InterPro: IPR013619 This domain of unknown function is found at the N terminus of bacterial and viral hypothetical proteins.
Probab=49.45 E-value=20 Score=21.25 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=15.3
Q ss_pred CCCHHHHHHHHHHHHHh
Q psy2758 47 GENAVEFASRVKRAISK 63 (72)
Q Consensus 47 ~E~~~eFA~RVk~~IA~ 63 (72)
+.+..+|.+||-++|++
T Consensus 11 ~~d~~~fc~rVt~aL~~ 27 (54)
T PF08410_consen 11 GPDDSAFCHRVTEALNE 27 (54)
T ss_pred CCChHHHHHHHHHHHHc
Confidence 67888999999999987
No 24
>PF00269 SASP: Small, acid-soluble spore proteins, alpha/beta type; InterPro: IPR001448 Small, acid-soluble spore proteins (SASP or ASSP) are proteins bound to the spore DNA of bacteria of the genera Bacillus, Thermoactynomycetes, and Clostridium [, ]. They are double-stranded DNA-binding proteins that cause DNA to change to an A-like conformation. They protect the DNA backbone from chemical and enzymatic cleavage and are thus involved in dormant spore's high resistance to UV light. SASP are degraded in the first minutes of spore germination and provide amino acids for both new protein synthesis and metabolism. There are two distinct families of SASP: the alpha/beta type and the gamma- type. Alpha/beta SASP are small proteins of about sixty to seventy amino acid residues that are generally coded by a multigene family. The N terminus of alpha/beta SASP contains the site which is cleaved by a SASP- specific protease that acts during germination while the C terminus and is probably involved in DNA-binding.; GO: 0003690 double-stranded DNA binding, 0006265 DNA topological change; PDB: 2Z3X_B.
Probab=48.93 E-value=18 Score=21.47 Aligned_cols=21 Identities=29% Similarity=0.332 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHhhCCCccC
Q psy2758 50 AVEFASRVKRAISKQGGLVDL 70 (72)
Q Consensus 50 ~~eFA~RVk~~IA~~~gl~~l 70 (72)
+.+--++.|-+||+++||.+.
T Consensus 8 a~~~Ld~lK~EiA~ElGv~~~ 28 (61)
T PF00269_consen 8 AREALDQLKYEIAKELGVDNV 28 (61)
T ss_dssp GHHHHHHHHHHHHHHHT---S
T ss_pred HHHHHHHHHHHHHHHhCCCcc
Confidence 456678899999999998543
No 25
>PRK09438 nudB dihydroneopterin triphosphate pyrophosphatase; Provisional
Probab=46.88 E-value=28 Score=22.22 Aligned_cols=32 Identities=22% Similarity=0.324 Sum_probs=25.7
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+.|.+|.=..++||++.+=|. .++.++.||..
T Consensus 31 ~~W~lPgG~ve~gEs~~~aa~---REl~EEtGl~~ 62 (148)
T PRK09438 31 DFWQSVTGSLEEGETPAQTAI---REVKEETGIDV 62 (148)
T ss_pred CcEeCCcccCCCCCCHHHHHH---HHHHHHhCcCc
Confidence 468899999999999887555 67888888764
No 26
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=46.14 E-value=27 Score=23.91 Aligned_cols=24 Identities=21% Similarity=0.368 Sum_probs=21.9
Q ss_pred CCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 46 QGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
.+.++.||..+|++.|..++|+.+
T Consensus 25 ~~~Tv~~l~~~v~~~I~t~~~~~P 48 (122)
T PF10209_consen 25 KDTTVKDLKEQVKQDIKTRPGLPP 48 (122)
T ss_pred ccCcHHHHHHHHHHHHhcCCCCCC
Confidence 388999999999999999999965
No 27
>TIGR02883 spore_cwlD N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect.
Probab=46.07 E-value=40 Score=23.09 Aligned_cols=33 Identities=12% Similarity=0.189 Sum_probs=25.2
Q ss_pred eEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 32 IVADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
.-++|+|.+ ..+.+.++|+.++..|.+.++..+
T Consensus 101 ~G~ev~~~~-----~~~~s~~lA~~i~~~l~~~~~~~~ 133 (189)
T TIGR02883 101 SGAQTFYYG-----NSEENKRLAKFIQDELRRNLDNTN 133 (189)
T ss_pred CeEEEEEeC-----CCHHHHHHHHHHHHHHHHhcCcCC
Confidence 356788866 245778999999999998877643
No 28
>PF08549 SWI-SNF_Ssr4: Fungal domain of unknown function (DUF1750); InterPro: IPR013859 This is a fungal protein of unknown function.
Probab=45.40 E-value=17 Score=31.11 Aligned_cols=23 Identities=26% Similarity=0.232 Sum_probs=19.4
Q ss_pred CccCCCCCCHHHHHHHHHHHHHh
Q psy2758 41 PMFQGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 41 p~~r~~~E~~~eFA~RVk~~IA~ 63 (72)
...|.+-|-++||++||.+-||.
T Consensus 353 ~~gkLdp~~aeeF~kRV~~~ia~ 375 (669)
T PF08549_consen 353 YVGKLDPGKAEEFRKRVAKKIAD 375 (669)
T ss_pred cccCCCHHHHHHHHHHHHHHHHH
Confidence 35677888999999999998876
No 29
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=45.30 E-value=18 Score=24.38 Aligned_cols=19 Identities=16% Similarity=0.193 Sum_probs=16.1
Q ss_pred CCCCCCHHHHHHHHHHHHH
Q psy2758 44 QGQGENAVEFASRVKRAIS 62 (72)
Q Consensus 44 r~~~E~~~eFA~RVk~~IA 62 (72)
-...++|..||++||+++.
T Consensus 103 ~~~~gdp~~lA~~vr~Ald 121 (123)
T PF07485_consen 103 IWGVGDPAKLARKVRAALD 121 (123)
T ss_pred EEecCCHHHHHHHHHHHHh
Confidence 3457899999999999875
No 30
>PF00183 HSP90: Hsp90 protein; InterPro: IPR001404 Molecular chaperones, or heat shock proteins (Hsps) are ubiquitous proteins that act to maintain proper protein folding within the cell []. They assist in the folding of nascent polypeptide chains, and are also involved in the re-folding of denatured proteins following proteotoxic stress. As their name implies, the heat shock proteins were first identified as proteins that were up-regulated under conditions of elevated temperature. However, subsequent studies have shown that increased Hsp expression is induced by a variety of cellular stresses, including oxidative stress and inflammation. Five major Hsp families have been determined, and are categorized according to their molecular size (Hsp100, Hsp90, Hsp70, Hsp60, and the small Hsps). Hsps are involved in a variety of cellular processes that are ATP-dependent. These include: prevention of protein aggregation, protein degradation, protein trafficking, and maintenance of signalling proteins in a conformation that permits activation. Hsp90 chaperones are unique in their ability to regulate a specific subset of cellular signalling proteins that have been implicated in disease processes, including intracellular protein kinases, steroid hormone receptors, and growth factor receptors [].; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0006950 response to stress; PDB: 3K99_D 2H55_A 3RLP_A 1OSF_A 3R4M_A 1YES_A 1UY9_A 3FT8_A 2YE2_A 2QF6_A ....
Probab=44.92 E-value=23 Score=28.82 Aligned_cols=23 Identities=26% Similarity=0.410 Sum_probs=18.5
Q ss_pred CCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 47 GENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 47 ~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
-+++..||+||-.+|...+|+..
T Consensus 477 l~dp~~F~~Ri~~lL~~~l~~~~ 499 (531)
T PF00183_consen 477 LEDPAAFAKRINKLLEKSLGVDP 499 (531)
T ss_dssp -SSHHHHHHHHHHHHHHTTC--S
T ss_pred cccHHHHHHHHHHHHHHhcCCCc
Confidence 46899999999999999999853
No 31
>TIGR03162 ribazole_cobC alpha-ribazole phosphatase. Members of this protein family include the known CobC protein of Salmonella and Eschichia coli species, and homologous proteins found in cobalamin biosynthesis regions in other bacteria. This protein is alpha-ribazole phosphatase (EC 3.1.3.73) and, like many phosphatases, can be closely related in sequence to other phosphatases with different functions. Close homologs excluded from this model include proteins with duplications, so this model is built in -g mode to suppress hits to those proteins.
Probab=43.37 E-value=29 Score=22.58 Aligned_cols=18 Identities=28% Similarity=0.484 Sum_probs=15.9
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
.+|+..+|.+||++.+.+
T Consensus 113 ~gEs~~~~~~R~~~~~~~ 130 (177)
T TIGR03162 113 GGESFADFYQRVSEFLEE 130 (177)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 589999999999988765
No 32
>PF05093 CIAPIN1: Cytokine-induced anti-apoptosis inhibitor 1, Fe-S biogenesis; InterPro: IPR007785 Anamorsin, subsequently named CIAPIN1 for cytokine-induced anti-apoptosis inhibitor 1, in humans is the homologue of yeast Dre2, a conserved soluble eukaryotic Fe-S cluster protein, that functions in cytosolic Fe-S protein biogenesis. It is found in both the cytoplasm and in the mitochondrial intermembrane space (IMS) []. CIAPIN1 is found to be up-regulated in hepatocellular cancer, is considered to be a downstream effector of the receptor tyrosine kinase-Ras signalling pathway, and is essential in mouse definitive haematopoiesis []. In addition, it has also anti-apoptotic effects in the cell. It is involved in negative control of cell death upon cytokine withdrawal and promotes development of hematopoietic cells [].
Probab=40.83 E-value=12 Score=24.80 Aligned_cols=14 Identities=50% Similarity=1.113 Sum_probs=12.0
Q ss_pred CCccccccccccCC
Q psy2758 2 CGICRFGDAFWNSS 15 (72)
Q Consensus 2 ~~~~~fgD~fWns~ 15 (72)
||+-.+||||==++
T Consensus 70 CGsC~LGDAFRCa~ 83 (100)
T PF05093_consen 70 CGSCYLGDAFRCAG 83 (100)
T ss_pred cccccccccceecC
Confidence 99999999996554
No 33
>PF03090 Replicase: Replicase family; InterPro: IPR004322 This is a family of bacterial plasmid DNA replication initiator proteins. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or may be mediated by Hsp70 chaperones. A similar RepA family of proteins found mainly in Escherichia coli is involved in plasmid replication (see IPR000525 from INTERPRO).
Probab=38.69 E-value=52 Score=22.32 Aligned_cols=33 Identities=24% Similarity=0.528 Sum_probs=25.3
Q ss_pred EEEEE-eC-CccCCC--CCCHHHHHHHHHHHHHhhCC
Q psy2758 34 ADVWY-LP-PMFQGQ--GENAVEFASRVKRAISKQGG 66 (72)
Q Consensus 34 ~dV~y-Lp-p~~r~~--~E~~~eFA~RVk~~IA~~~g 66 (72)
|.+.| |. |+.+.+ ..-|++++.+|++.+.+++|
T Consensus 63 aHl~y~L~~PV~~t~~ar~kpl~ylaav~~~L~~~L~ 99 (137)
T PF03090_consen 63 AHLIYALDAPVCTTENARSKPLRYLAAVERALTRKLG 99 (137)
T ss_pred EEEEEEECCcEeeCccccchHHHHHHHHHHHHHHHhC
Confidence 44444 77 887744 45689999999999999887
No 34
>PF14740 DUF4471: Domain of unknown function (DUF4471)
Probab=38.69 E-value=26 Score=26.75 Aligned_cols=44 Identities=23% Similarity=0.420 Sum_probs=31.1
Q ss_pred HHHHhhcce-eEEEE-EEeCCccCCCCCCHHHHHHHHHHHHHhhCCCccC
Q psy2758 23 LYMMMTSWA-IVADV-WYLPPMFQGQGENAVEFASRVKRAISKQGGLVDL 70 (72)
Q Consensus 23 l~~lMTsW~-~V~dV-~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~l 70 (72)
|..+|..=+ +|++- .||-+.+ .|.-.+|+++|++ +|+++|++..
T Consensus 240 l~~~~a~~A~LvvEtaKfmvdLr---KEq~~~F~~kv~e-LA~~aG~~p~ 285 (289)
T PF14740_consen 240 LFQALAPDAVLVVETAKFMVDLR---KEQLQEFVKKVKE-LAKAAGFKPV 285 (289)
T ss_pred HHHHhCCCCEEEEEcchhheeCC---HHHHHHHHHHHHH-HHHHCCCccc
Confidence 344444443 45565 5887777 6778999999975 6889998764
No 35
>COG3399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.46 E-value=17 Score=25.57 Aligned_cols=30 Identities=27% Similarity=0.287 Sum_probs=24.3
Q ss_pred EEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhC
Q psy2758 33 VADVWYLPPMFQGQGENAVEFASRVKRAISKQG 65 (72)
Q Consensus 33 V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~ 65 (72)
..||--||.+++.-+ +||+|.+++.|+.++
T Consensus 24 Ffdv~vl~vvkk~~~---~e~~n~~~~~~s~ra 53 (148)
T COG3399 24 FFDVLVLSVVKKGRV---EEARNEVEKAMSYRA 53 (148)
T ss_pred HHheeehhhhhhcch---hhhhhHHHhhhhhhh
Confidence 479999999998755 688888888888764
No 36
>COG0406 phoE Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]
Probab=36.97 E-value=50 Score=22.17 Aligned_cols=18 Identities=28% Similarity=0.477 Sum_probs=16.5
Q ss_pred CCCHHHHHHHHHHHHHhh
Q psy2758 47 GENAVEFASRVKRAISKQ 64 (72)
Q Consensus 47 ~E~~~eFA~RVk~~IA~~ 64 (72)
+|+..+|+.||...|++-
T Consensus 122 gEs~~~~~~R~~~~~~~~ 139 (208)
T COG0406 122 GESLADVSKRVVAALAEL 139 (208)
T ss_pred CCCHHHHHHHHHHHHHHH
Confidence 899999999999998874
No 37
>PRK03352 DNA polymerase IV; Validated
Probab=36.24 E-value=45 Score=24.66 Aligned_cols=30 Identities=20% Similarity=0.310 Sum_probs=23.1
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||..-. .++.++|+++|+.|+++.|+.
T Consensus 109 De~~ld~t~----~~~~~la~~ir~~i~~~~gl~ 138 (346)
T PRK03352 109 DEAFLGVDT----DDPEALAEEIRAAVLERTGLS 138 (346)
T ss_pred ccEEEeCCC----CCHHHHHHHHHHHHHHHHCCC
Confidence 445554442 388999999999999998875
No 38
>smart00646 Ami_3 Ami_3.
Probab=36.14 E-value=96 Score=19.01 Aligned_cols=35 Identities=23% Similarity=0.303 Sum_probs=25.7
Q ss_pred EEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 33 VADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 33 V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
-.+|+|.++-.. .....++|+.++..+.+..|+.+
T Consensus 27 G~~v~~~~~~~~--~~~~~~la~~i~~~l~~~~~~~~ 61 (113)
T smart00646 27 GFEVYYYSDKGA--IRESRALASIIQKSLVKNTGLRD 61 (113)
T ss_pred EEEEEEECCCCC--chHHHHHHHHHHHHHHHhcCCCC
Confidence 577888655421 24577899999999999887654
No 39
>PRK14118 gpmA phosphoglyceromutase; Provisional
Probab=35.76 E-value=42 Score=23.60 Aligned_cols=19 Identities=21% Similarity=0.018 Sum_probs=16.0
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q psy2758 45 GQGENAVEFASRVKRAISK 63 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~ 63 (72)
..+|+..+|.+||++.|.+
T Consensus 146 p~GEs~~~~~~Rv~~~l~~ 164 (227)
T PRK14118 146 PDAENLKVTLERVLPFWED 164 (227)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 3699999999999987754
No 40
>cd04676 Nudix_Hydrolase_17 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=35.60 E-value=61 Score=19.30 Aligned_cols=31 Identities=29% Similarity=0.489 Sum_probs=22.3
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
+.|.||--...++|++++=| +.++.++.|+.
T Consensus 25 ~~w~lPgG~v~~~E~~~~aa---~REl~EE~Gl~ 55 (129)
T cd04676 25 GLWALPGGAVEPGESPADTA---VREVREETGLD 55 (129)
T ss_pred CcEECCeeccCCCCCHHHHH---HHHHHHHhCce
Confidence 56888887889999987444 45666666653
No 41
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=35.29 E-value=49 Score=21.20 Aligned_cols=20 Identities=25% Similarity=0.317 Sum_probs=17.5
Q ss_pred CCCCCCHHHHHHHHHHHHHh
Q psy2758 44 QGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 44 r~~~E~~~eFA~RVk~~IA~ 63 (72)
-.+++++.+|.+|++++|.+
T Consensus 35 ~~~~~~~~~~~~~l~~~i~~ 54 (116)
T TIGR00824 35 FVPGENAETLQEKYNAALAD 54 (116)
T ss_pred cCCCcCHHHHHHHHHHHHHh
Confidence 45589999999999999986
No 42
>cd02636 R3H_sperm-antigen R3H domain of a group of metazoan proteins that is related to the sperm-associated antigen 7. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=35.13 E-value=47 Score=20.19 Aligned_cols=18 Identities=11% Similarity=0.337 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHhhCCCcc
Q psy2758 52 EFASRVKRAISKQGGLVD 69 (72)
Q Consensus 52 eFA~RVk~~IA~~~gl~~ 69 (72)
.|-.+|-.-+|+.+||.+
T Consensus 27 ~~eRkivHDv~~~~Gl~S 44 (61)
T cd02636 27 KVERSIVHDVAEVAGLTS 44 (61)
T ss_pred HHHHHHHHHHHHhcCcee
Confidence 678899999999999975
No 43
>PRK03348 DNA polymerase IV; Provisional
Probab=34.89 E-value=1e+02 Score=24.22 Aligned_cols=34 Identities=24% Similarity=0.413 Sum_probs=26.5
Q ss_pred EEEEeCCccCC--CCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQG--QGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~--~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||.+.... ..+++.++|.++|+.|.++.||.
T Consensus 106 DE~flD~~~l~~~~~~~~~~~a~~lr~~I~~~~Gl~ 141 (454)
T PRK03348 106 DEAFVEPAELAGASAEEVEAFAERLRARVREETGLP 141 (454)
T ss_pred CeEEEEccccccccCCCHHHHHHHHHHHHHHHHCCC
Confidence 66677755442 34588999999999999999985
No 44
>PF00101 RuBisCO_small: Ribulose bisphosphate carboxylase, small chain; InterPro: IPR000894 RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP) [], thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown []. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome [], which results in RuBisCO being more abundant during the day when it is required. The RuBisCo small subunit consists of a central four-stranded beta-sheet, with two helices packed against it [].; PDB: 1BWV_W 1IWA_P 3AXM_X 1WDD_S 3AXK_T 1IR2_K 1RBL_N 1UZH_J 1RSC_P 1UW9_C ....
Probab=34.71 E-value=33 Score=22.29 Aligned_cols=20 Identities=40% Similarity=0.727 Sum_probs=15.1
Q ss_pred EeCCccCCCCCCHHHHHHHHHHHHHh
Q psy2758 38 YLPPMFQGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 38 yLpp~~r~~~E~~~eFA~RVk~~IA~ 63 (72)
||||++ ..|.++.|+.+|++
T Consensus 7 ~lP~l~------~~~i~~Qv~~ll~q 26 (99)
T PF00101_consen 7 YLPPLT------DEEIAKQVRYLLSQ 26 (99)
T ss_dssp TSS---------HHHHHHHHHHHHHT
T ss_pred cCCCCC------HHHHHHHHHhhhhc
Confidence 788886 78899999999987
No 45
>PF13776 DUF4172: Domain of unknown function (DUF4172)
Probab=34.68 E-value=34 Score=21.60 Aligned_cols=13 Identities=31% Similarity=0.585 Sum_probs=11.0
Q ss_pred HHHHHHHHhhCCC
Q psy2758 55 SRVKRAISKQGGL 67 (72)
Q Consensus 55 ~RVk~~IA~~~gl 67 (72)
.-|++-||+++||
T Consensus 70 ~sVrSSiarrLGl 82 (82)
T PF13776_consen 70 DSVRSSIARRLGL 82 (82)
T ss_pred HHHHHHHHHHcCC
Confidence 3499999999996
No 46
>PF10820 DUF2543: Protein of unknown function (DUF2543); InterPro: IPR020251 This entry contains proteins with no known function.
Probab=34.45 E-value=37 Score=21.76 Aligned_cols=21 Identities=14% Similarity=0.416 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHHHHhhCCCcc
Q psy2758 49 NAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 49 ~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+.+|-+.--|+.+|.++|+..
T Consensus 45 nneeIsEeaQ~EMA~eAgi~~ 65 (81)
T PF10820_consen 45 NNEEISEEAQQEMASEAGIDE 65 (81)
T ss_pred ccHhhhHHHHHHHHHHcCCcH
Confidence 356677788999999999864
No 47
>cd01700 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V. umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.
Probab=33.62 E-value=48 Score=24.47 Aligned_cols=34 Identities=21% Similarity=0.219 Sum_probs=26.4
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||+.-.-....++.++|+++|+.|.++.|+.
T Consensus 99 De~~ldvt~~~~~~~~~~la~~i~~~i~~~~gl~ 132 (344)
T cd01700 99 DESFLDLTGSLRFGDLEELARKIRRRILQETGIP 132 (344)
T ss_pred chhhccCcCCCCCCCHHHHHHHHHHHHHHHhCCc
Confidence 4457776544336789999999999999999875
No 48
>PTZ00130 heat shock protein 90; Provisional
Probab=33.31 E-value=45 Score=29.10 Aligned_cols=24 Identities=21% Similarity=0.270 Sum_probs=19.9
Q ss_pred CCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 46 QGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
.-|+|.+||+|+..+|+..+|+..
T Consensus 737 ~l~DP~~fa~ri~~ll~~~l~~~~ 760 (814)
T PTZ00130 737 DLEDTADLAQIVYDHINQKLGVDN 760 (814)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCc
Confidence 357889999999999998888753
No 49
>PRK13462 acid phosphatase; Provisional
Probab=32.55 E-value=51 Score=22.83 Aligned_cols=18 Identities=28% Similarity=0.492 Sum_probs=16.1
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
.+|+..+|..||++.+..
T Consensus 115 ~gES~~~~~~Rv~~~l~~ 132 (203)
T PRK13462 115 GGESVAQVNERADRAVAL 132 (203)
T ss_pred CCccHHHHHHHHHHHHHH
Confidence 699999999999888765
No 50
>PRK03482 phosphoglycerate mutase; Provisional
Probab=32.53 E-value=63 Score=22.02 Aligned_cols=19 Identities=26% Similarity=0.492 Sum_probs=16.1
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q psy2758 45 GQGENAVEFASRVKRAISK 63 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~ 63 (72)
..+|+-.+|.+||+..+.+
T Consensus 117 p~gEs~~~~~~Rv~~~l~~ 135 (215)
T PRK03482 117 PEGESMQELSDRMHAALES 135 (215)
T ss_pred CCCccHHHHHHHHHHHHHH
Confidence 4589999999999987754
No 51
>PRK09565 hypothetical protein; Reviewed
Probab=31.79 E-value=3.8 Score=33.99 Aligned_cols=36 Identities=31% Similarity=0.641 Sum_probs=27.5
Q ss_pred EE-eCCccCC-----CCCCHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 37 WY-LPPMFQG-----QGENAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 37 ~y-Lpp~~r~-----~~E~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
|| ||+..|+ =++...+||.+|++.|+-.-||.+-.|
T Consensus 166 WYlLp~eERr~mM~eHG~iGR~YagkV~q~ItgSfGLDDyEW 207 (533)
T PRK09565 166 WYDLPFDERAEHMSSHGDIGRQYAGKVTQIIAGSIGFDDWEW 207 (533)
T ss_pred cccCCHHHHHHHHHHHHHHhccCcchhhhheeccccccceeE
Confidence 67 5555542 256777899999999999999988776
No 52
>PRK09184 acyl carrier protein; Provisional
Probab=31.45 E-value=56 Score=20.42 Aligned_cols=18 Identities=11% Similarity=0.128 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHhhCCCc
Q psy2758 51 VEFASRVKRAISKQGGLV 68 (72)
Q Consensus 51 ~eFA~RVk~~IA~~~gl~ 68 (72)
.+.-.+||++||+++|+.
T Consensus 5 ~~l~~~l~~~I~e~l~~~ 22 (89)
T PRK09184 5 TALERELAELIVEELNLE 22 (89)
T ss_pred HHHHHHHHHHHHHHHCCC
Confidence 456789999999999974
No 53
>cd07992 LPLAT_AAK14816-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown AAK14816-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are uncharacterized glycerol-3-phosphate acyltransferases such as the Plasmodium falciparum locus AAK14816 putative acyltransferase, and similar proteins.
Probab=31.00 E-value=52 Score=22.28 Aligned_cols=30 Identities=20% Similarity=-0.006 Sum_probs=24.2
Q ss_pred eEEEEEEeCCccCCCCCCHHHHHHHHHHHH
Q psy2758 32 IVADVWYLPPMFQGQGENAVEFASRVKRAI 61 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E~~~eFA~RVk~~I 61 (72)
.-+.|.+.+|+...+.+++++.-.+++.++
T Consensus 166 ~~i~i~~g~pi~~~~~~~~~~~~~~~~~~~ 195 (203)
T cd07992 166 SRVLVEFGKPISVSAFEEAEASRDVEKKLI 195 (203)
T ss_pred CeEEEEECCCcccccccccccchhHHHHHH
Confidence 457899999999999998887777777655
No 54
>cd07986 LPLAT_ACT14924-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are uncharacterized phospholipid/glycerol acyltransferases such as the Pectobacterium carotovorum subsp. carotovorum PC1 locus ACT14924 putative acyltransferase, and similar proteins.
Probab=30.92 E-value=46 Score=22.88 Aligned_cols=30 Identities=17% Similarity=0.083 Sum_probs=24.1
Q ss_pred eeEEEEEEeCCccCCC---CCCHHHHHHHHHHH
Q psy2758 31 AIVADVWYLPPMFQGQ---GENAVEFASRVKRA 60 (72)
Q Consensus 31 ~~V~dV~yLpp~~r~~---~E~~~eFA~RVk~~ 60 (72)
...+.|.++||+...+ .|+..|+++.||+.
T Consensus 176 ~~~v~v~~g~pI~~~~~~~~~~~~~l~~~~~~~ 208 (210)
T cd07986 176 GKTIRIRVGRPIPPEELARFEDAEELADFLRLH 208 (210)
T ss_pred CCEEEEEeCCcCCHHHHhcCCCHHHHHHHHHHh
Confidence 3568999999997633 67899999999873
No 55
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=30.41 E-value=1.2e+02 Score=19.79 Aligned_cols=32 Identities=25% Similarity=0.470 Sum_probs=23.5
Q ss_pred EEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 34 ADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 34 ~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+.|+|-+.- .+.+.++|+++...+++.+++.+
T Consensus 88 ~~v~~~~~~----~~~s~~lA~~l~~~l~~~~~~~~ 119 (172)
T cd02696 88 AEVYYYSGS----SEESKRLAEAIQKELVKALGLRN 119 (172)
T ss_pred EEEEEECCC----chHHHHHHHHHHHHHHHhcCCCC
Confidence 456555432 36788999999999999986543
No 56
>PRK14115 gpmA phosphoglyceromutase; Provisional
Probab=30.36 E-value=63 Score=23.24 Aligned_cols=20 Identities=15% Similarity=-0.087 Sum_probs=16.3
Q ss_pred cCCCCCCHHHHHHHHHHHHH
Q psy2758 43 FQGQGENAVEFASRVKRAIS 62 (72)
Q Consensus 43 ~r~~~E~~~eFA~RVk~~IA 62 (72)
....+|+-.+|..||.+.|-
T Consensus 144 ~~p~GES~~~~~~Rv~~~l~ 163 (247)
T PRK14115 144 ELPLTESLKDTIARVLPYWN 163 (247)
T ss_pred CCCCCCcHHHHHHHHHHHHH
Confidence 34569999999999988663
No 57
>smart00855 PGAM Phosphoglycerate mutase family. Phosphoglycerate mutase (PGAM) and bisphosphoglycerate mutase (BPGM) are structurally related enzymes that catalyse reactions involving the transfer of phospho groups between the three carbon atoms of phosphoglycerate PUBMED:2847721, PUBMED:2831102, PUBMED:10958932. Both enzymes can catalyse three different reactions with different specificities, the isomerization of 2-phosphoglycerate (2-PGA) to 3-phosphoglycerate (3-PGA) with 2,3-diphosphoglycerate (2,3-DPG) as the primer of the reaction, the synthesis of 2,3-DPG from 1,3-DPG with 3-PGA as a primer and the degradation of 2,3-DPG to 3-PGA (phosphatase activity). In mammals, PGAM is a dimeric protein with two isoforms, the M (muscle) and B (brain) forms. In yeast, PGAM is a tetrameric protein.
Probab=30.29 E-value=73 Score=20.26 Aligned_cols=19 Identities=26% Similarity=0.468 Sum_probs=16.3
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q psy2758 45 GQGENAVEFASRVKRAISK 63 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~ 63 (72)
..+|+..+|..||++.+..
T Consensus 113 ~~gEs~~~~~~Rv~~~~~~ 131 (155)
T smart00855 113 PGGESLADVVERLVRALEE 131 (155)
T ss_pred cCCCCHHHHHHHHHHHHHH
Confidence 3599999999999888765
No 58
>PF04445 SAM_MT: Putative SAM-dependent methyltransferase; InterPro: IPR007536 This family of proteins is functionally uncharacterised.; PDB: 2PGX_A 2OYR_A 2R6Z_A 2PKW_A.
Probab=30.10 E-value=20 Score=26.53 Aligned_cols=19 Identities=37% Similarity=0.550 Sum_probs=8.3
Q ss_pred eEEEEEEeCCccCCCCCCH
Q psy2758 32 IVADVWYLPPMFQGQGENA 50 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E~~ 50 (72)
..+||-||.||.+...+++
T Consensus 150 ~s~DVVY~DPMFp~~~ksa 168 (234)
T PF04445_consen 150 NSFDVVYFDPMFPERKKSA 168 (234)
T ss_dssp S--SEEEE--S-----TTT
T ss_pred CCCCEEEECCCCCCccccc
Confidence 5789999999999877665
No 59
>TIGR03848 MSMEG_4193 probable phosphomutase, MSMEG_4193 family. A three-gene system broadly conserved among the Actinobacteria includes MSMEG_4193 and homologs, a subgroup among the larger phosphoglycerate mutase family protein (pfam00300). Another member of the trio is a probable kinase, related to phosphatidylinositol kinases; that context supports the hypothesis that this protein acts as a phosphomutase.
Probab=30.07 E-value=60 Score=21.94 Aligned_cols=18 Identities=22% Similarity=0.385 Sum_probs=15.4
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
.+|+-.+|..||...|.+
T Consensus 115 ~gEs~~~~~~R~~~~l~~ 132 (204)
T TIGR03848 115 GGESLAQVQARAVAAVRE 132 (204)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 599999999998887654
No 60
>PRK12276 putative heme peroxidase; Provisional
Probab=29.96 E-value=2 Score=32.09 Aligned_cols=37 Identities=32% Similarity=0.608 Sum_probs=26.7
Q ss_pred EEE-eCCccCC-----CCCCHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 36 VWY-LPPMFQG-----QGENAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 36 V~y-Lpp~~r~-----~~E~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
=|| ||+..|+ =++.+.+|+.+|++.|...-||.|-.|
T Consensus 155 nWYlLp~eeR~~mM~eHg~~gr~y~~~V~q~tt~SfGldD~EW 197 (248)
T PRK12276 155 NWYMLPMEERQKLMYSHGMIGRKYAGKVKQIITGSVGFDDWEW 197 (248)
T ss_pred CcccCCHHHHHHHHHHHHHHhhhCCCceeeeeeecccccceeE
Confidence 456 5555552 245677899889999999989888666
No 61
>TIGR01258 pgm_1 phosphoglycerate mutase, BPG-dependent, family 1. Most members of this family are phosphoglycerate mutase (EC 5.4.2.1). This enzyme interconverts 2-phosphoglycerate and 3-phosphoglycerate. The enzyme is transiently phosphorylated on an active site histidine by 2,3-diphosphoglyerate, which is both substrate and product. Some members of this family have are phosphoglycerate mutase as a minor activity and act primarily as a bisphoglycerate mutase, interconverting 2,3-diphosphoglycerate and 1,3-diphosphoglycerate (EC 5.4.2.4). This model is designated as a subfamily for this reason. The second and third paralogs in S. cerevisiae are somewhat divergent and apparently inactive (see PUBMED:9544241) but are also part of this subfamily phylogenetically.
Probab=29.85 E-value=72 Score=22.91 Aligned_cols=18 Identities=17% Similarity=0.004 Sum_probs=15.5
Q ss_pred CCCCCHHHHHHHHHHHHH
Q psy2758 45 GQGENAVEFASRVKRAIS 62 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA 62 (72)
..+|+-.+|.+||.+.|.
T Consensus 146 p~GES~~~~~~Rv~~~l~ 163 (245)
T TIGR01258 146 PLTESLKDTIARVLPYWN 163 (245)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 369999999999998764
No 62
>PF00159 Hormone_3: Pancreatic hormone peptide; InterPro: IPR001955 Pancreatic hormone (PP) [] is a peptide synthesized in pancreatic islets of Langherhans, which acts as a regulator of pancreatic and gastrointestinal functions. The hormone is produced as a larger propeptide, which is enzymatically cleaved to yield the mature active peptide: this is 36 amino acids in length [] and has an amidated C terminus []. The hormone has a globular structure, residues 2-8 forming a left-handed poly-proline-II-like helix, residues 9-13 a beta turn, and 14-32 an alpha-helix,held close to the first helix by hydrophobic interactions []. Unlike glucagon, another peptide hormone, the structure of pancreatic peptide is preserved in aqueous solution []. Both N and C termini are required for activity: receptor binding and activation functions may reside in the N and C termini respectively []. Pancreatic hormone is part of a wider family of active peptides that includes: Neuropeptide Y (NPY) [], one of the most abundant peptides in the mammalian nervous system. NPY is implicated in the control of feeding and the secretion of the gonadotrophin-releasing hormone. Peptide YY (PYY) []. PPY is a gut peptide that inhibits exocrine pancreatic secretion, has a vasoconstrictory action and inhibits jejunal and colonic mobility. Various NPY and PYY-like polypeptides from fish and amphibians [, ]. Neuropeptide F (NPF) from invertebrates such as worms and snail. Skin peptide Tyr-Tyr (SPYY) from the frog Phyllomedusa bicolor. SPYY shows a large spectra of antibacterial and antifungal activity. All these peptides are 36 to 39 amino acids long. Like most active peptides, their C-terminal is amidated and they are synthesized as larger protein precursors.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1LJV_A 1BBA_A 1V1D_A 1PPT_A 2H3T_A 2H4B_A 2BF9_A 2H3S_B 1K8V_A 2DF0_A ....
Probab=29.83 E-value=94 Score=16.98 Aligned_cols=20 Identities=20% Similarity=0.102 Sum_probs=16.0
Q ss_pred eCCccCCCCCCHHHHHHHHH
Q psy2758 39 LPPMFQGQGENAVEFASRVK 58 (72)
Q Consensus 39 Lpp~~r~~~E~~~eFA~RVk 58 (72)
++|....++.+++|.++=..
T Consensus 3 ~~P~~P~~~aspeel~~Y~~ 22 (36)
T PF00159_consen 3 SKPERPGDFASPEELAQYYA 22 (36)
T ss_dssp SSSSSSSTTSSHHHHHHHHH
T ss_pred CCCCCCCCCCCHHHHHHHHH
Confidence 47888899999999886543
No 63
>PRK10742 putative methyltransferase; Provisional
Probab=29.76 E-value=35 Score=25.63 Aligned_cols=19 Identities=37% Similarity=0.541 Sum_probs=16.2
Q ss_pred eEEEEEEeCCccCCCCCCH
Q psy2758 32 IVADVWYLPPMFQGQGENA 50 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E~~ 50 (72)
.-+||-||.||.+...+++
T Consensus 163 ~~fDVVYlDPMfp~~~ksa 181 (250)
T PRK10742 163 PRPQVVYLDPMFPHKQKSA 181 (250)
T ss_pred CCCcEEEECCCCCCCcccc
Confidence 3589999999999888776
No 64
>KOG2848|consensus
Probab=29.47 E-value=72 Score=24.65 Aligned_cols=41 Identities=15% Similarity=0.103 Sum_probs=30.8
Q ss_pred HHhhcceeEEEEEEeCCccCC--CCCCHHHHHHHHHHHHHhhCCC
Q psy2758 25 MMMTSWAIVADVWYLPPMFQG--QGENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 25 ~lMTsW~~V~dV~yLpp~~r~--~~E~~~eFA~RVk~~IA~~~gl 67 (72)
+.+|| =-|-|.-|||..-+ .-++-.++++++++.|.+....
T Consensus 215 k~f~s--G~v~V~vL~pI~TeglT~ddv~~L~~~~R~~M~~~~~e 257 (276)
T KOG2848|consen 215 KVFNS--GNVIVRVLPPIPTEGLTKDDVDVLSDECRSAMLETFKE 257 (276)
T ss_pred ceeec--ceEEEEEcCCCCccCCCcccHHHHHHHHHHHHHHHHHH
Confidence 45667 45668889999865 4566689999999999875543
No 65
>PRK14116 gpmA phosphoglyceromutase; Provisional
Probab=29.24 E-value=79 Score=22.20 Aligned_cols=19 Identities=26% Similarity=0.050 Sum_probs=15.8
Q ss_pred CCCCCCHHHHHHHHHHHHH
Q psy2758 44 QGQGENAVEFASRVKRAIS 62 (72)
Q Consensus 44 r~~~E~~~eFA~RVk~~IA 62 (72)
...+|+..+|.+||+..+.
T Consensus 146 ~pgGEs~~~~~~Rv~~~l~ 164 (228)
T PRK14116 146 IPGGENLKVTLERVIPFWE 164 (228)
T ss_pred CCCCCCHHHHHHHHHHHHH
Confidence 3569999999999988654
No 66
>cd04661 MRP_L46 Mitochondrial ribosomal protein L46 (MRP L46) is a component of the large subunit (39S) of the mammalian mitochondrial ribosome and a member of the Nudix hydrolase superfamily. MRPs are thought to be involved in the maintenance of the mitochondrial DNA. In general, members of the Nudix superfamily require a divalent cation, such as Mg2+ or Mn2+, for activity and contain the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. MRP L46 appears to contain a modified nudix motif.
Probab=29.05 E-value=93 Score=19.72 Aligned_cols=31 Identities=26% Similarity=0.404 Sum_probs=25.1
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
..|=||--+.+++|++.+=|. .++.++.|+.
T Consensus 26 g~W~fPgG~ve~gEt~~eaa~---REl~EEtGl~ 56 (132)
T cd04661 26 NHWILPQGKREEGETLRQTAE---RTLKELCGNN 56 (132)
T ss_pred CeeECCcccccCCCCHHHHHH---HHHHHhhCCC
Confidence 368899999999999999887 4677777774
No 67
>PF01864 DUF46: Putative integral membrane protein DUF46; InterPro: IPR002726 This archaebacterial protein has no known function. It contains several predicted transmembrane regions, suggesting it is an integral membrane protein.
Probab=28.82 E-value=52 Score=23.37 Aligned_cols=20 Identities=20% Similarity=0.298 Sum_probs=17.8
Q ss_pred HHHHHHHHHHhhCCCccCCC
Q psy2758 53 FASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 53 FA~RVk~~IA~~~gl~~l~W 72 (72)
+.+++-+.||-++|++++||
T Consensus 156 ~lH~~~N~i~Y~LglK~vpw 175 (175)
T PF01864_consen 156 LLHLGTNIIAYKLGLKKVPW 175 (175)
T ss_pred HHHHHHHHHHHHHcCCCCCC
Confidence 45788899999999999999
No 68
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.59 E-value=1.3e+02 Score=17.67 Aligned_cols=35 Identities=9% Similarity=0.009 Sum_probs=23.8
Q ss_pred eeEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCC
Q psy2758 31 AIVADVWYLPPMFQGQGENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 31 ~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl 67 (72)
-.+.|+.|+.....+ ..+.+--.++++.|.+.+|-
T Consensus 39 ~~v~D~F~V~d~~~~--~~~~~~~~~l~~~L~~~L~~ 73 (76)
T cd04927 39 GRVLDLFFITDAREL--LHTKKRREETYDYLRAVLGD 73 (76)
T ss_pred CEEEEEEEEeCCCCC--CCCHHHHHHHHHHHHHHHch
Confidence 458899998433222 23445667899999988884
No 69
>PRK01112 phosphoglyceromutase; Provisional
Probab=28.58 E-value=65 Score=22.85 Aligned_cols=19 Identities=21% Similarity=0.209 Sum_probs=16.2
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q psy2758 45 GQGENAVEFASRVKRAISK 63 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~ 63 (72)
..+|+-.+|.+||+..+.+
T Consensus 146 p~GES~~d~~~Rv~~~l~~ 164 (228)
T PRK01112 146 PQGESLEDTGQRTLPYFQN 164 (228)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 3699999999999988764
No 70
>cd01701 PolY_Rev1 DNA polymerase Rev1. Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.
Probab=28.54 E-value=81 Score=24.21 Aligned_cols=34 Identities=18% Similarity=0.061 Sum_probs=27.1
Q ss_pred EEEEeCCccCC--CCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQG--QGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~--~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||..-.-. ..+++.++|.++|+.|.++.||.
T Consensus 148 DE~~lDvt~~~~~~~~~~~~la~~ir~~I~~~~gl~ 183 (404)
T cd01701 148 DEALIDITSLLEETYELPEELAEAIRNEIRETTGCS 183 (404)
T ss_pred ceEEEEcccccccccCCHHHHHHHHHHHHHHHHCCC
Confidence 66777765543 35789999999999999999985
No 71
>PF11058 Ral: Antirestriction protein Ral ; InterPro: IPR022759 Ral alleviates restriction and enhances modification by the E.coli restriction and modification system [].
Probab=28.46 E-value=47 Score=20.38 Aligned_cols=24 Identities=21% Similarity=0.296 Sum_probs=20.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhhCCC
Q psy2758 44 QGQGENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 44 r~~~E~~~eFA~RVk~~IA~~~gl 67 (72)
++++.--...|-|.-.+||+++|-
T Consensus 37 ~edgk~vdkwairttamiarelgk 60 (66)
T PF11058_consen 37 MEDGKYVDKWAIRTTAMIARELGK 60 (66)
T ss_pred cccCchhhhHHHHHHHHHHHHHHh
Confidence 356777788999999999999884
No 72
>cd04693 Nudix_Hydrolase_34 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=28.43 E-value=77 Score=19.51 Aligned_cols=29 Identities=24% Similarity=0.424 Sum_probs=20.1
Q ss_pred EEEeCC-ccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 36 VWYLPP-MFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 36 V~yLpp-~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
-|-+|| -+.+.+|++ + =++.++.++.|+.
T Consensus 29 ~w~~p~GG~ve~gE~~-~---aa~REl~EEtGl~ 58 (127)
T cd04693 29 MWDLSVGGHVQAGETS-T---AAEREVKEELGLE 58 (127)
T ss_pred cccccCCCcCCCCCCH-H---HHHHHHHHHhCCC
Confidence 566886 467889998 4 3446777777765
No 73
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed
Probab=28.29 E-value=86 Score=24.05 Aligned_cols=34 Identities=9% Similarity=0.132 Sum_probs=26.0
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||..-.-....++.++|.++|+.|.++.||.
T Consensus 101 DE~~lDvt~~~~l~~~~~~a~~i~~~I~~~~gl~ 134 (422)
T PRK03609 101 DEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLT 134 (422)
T ss_pred ccceecCCCCcCCCCHHHHHHHHHHHHHHHHCCc
Confidence 5567776544333578999999999999999985
No 74
>smart00838 EFG_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Probab=28.20 E-value=30 Score=20.60 Aligned_cols=29 Identities=17% Similarity=0.287 Sum_probs=24.2
Q ss_pred eCCccCCCCCCHHHHHHHHHHHHHhhCCC
Q psy2758 39 LPPMFQGQGENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 39 Lpp~~r~~~E~~~eFA~RVk~~IA~~~gl 67 (72)
|+|+..-+=+.|.++..+|-+.|+++-|.
T Consensus 2 lEPi~~~~I~~p~~~~g~v~~~l~~rrG~ 30 (85)
T smart00838 2 LEPIMKVEVTVPEEYMGDVIGDLNSRRGK 30 (85)
T ss_pred cCCEEEEEEEeCHHHHHHHHHHHHHcCCE
Confidence 57777777788999999999999987764
No 75
>KOG4020|consensus
Probab=28.14 E-value=25 Score=26.89 Aligned_cols=16 Identities=50% Similarity=0.904 Sum_probs=13.5
Q ss_pred CCCccccccccccCCC
Q psy2758 1 MCGICRFGDAFWNSSK 16 (72)
Q Consensus 1 ~~~~~~fgD~fWns~~ 16 (72)
-|||-..||||=-|.-
T Consensus 218 ~CGnCylGdaFrCs~C 233 (257)
T KOG4020|consen 218 ACGNCYLGDAFRCSGC 233 (257)
T ss_pred ccCcccccccceecCC
Confidence 3999999999977664
No 76
>PRK15472 nucleoside triphosphatase NudI; Provisional
Probab=28.13 E-value=97 Score=19.53 Aligned_cols=31 Identities=26% Similarity=0.208 Sum_probs=23.6
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
..|-+|--..++||++.+=|. .++.++.||.
T Consensus 31 g~W~lPgG~ve~gEs~~~aa~---REl~EEtGl~ 61 (141)
T PRK15472 31 GQWALSGGGVEPGERIEEALR---REIREELGEQ 61 (141)
T ss_pred CceeCCcccCCCCCCHHHHHH---HHHHHHHCCc
Confidence 457788878899999998776 4667777763
No 77
>PRK08172 putative acyl carrier protein IacP; Validated
Probab=28.05 E-value=42 Score=20.53 Aligned_cols=17 Identities=24% Similarity=0.335 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHhhCCCc
Q psy2758 52 EFASRVKRAISKQGGLV 68 (72)
Q Consensus 52 eFA~RVk~~IA~~~gl~ 68 (72)
+--+||+++||+++|+.
T Consensus 4 ~i~~~v~~iiae~l~v~ 20 (82)
T PRK08172 4 DIEARVKKVITSCIAVD 20 (82)
T ss_pred cHHHHHHHHHHHHHCCC
Confidence 45689999999999875
No 78
>PRK15004 alpha-ribazole phosphatase; Provisional
Probab=27.54 E-value=71 Score=21.56 Aligned_cols=18 Identities=39% Similarity=0.654 Sum_probs=15.5
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
.+|+-.+|.+||++.+.+
T Consensus 117 ~gEs~~~~~~Rv~~~l~~ 134 (199)
T PRK15004 117 NGEGFQAFSQRVERFIAR 134 (199)
T ss_pred CCcCHHHHHHHHHHHHHH
Confidence 599999999999887654
No 79
>PF01996 F420_ligase: F420-0:Gamma-glutamyl ligase; InterPro: IPR002847 This entry contains F420-0:gamma-glutamyl ligase and related proteins. F420-0:gamma-glutamyl ligase catalyzes the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form polyglutamated F420 derivatives [, , , ].; PDB: 2G9I_A 2PHN_A.
Probab=27.29 E-value=54 Score=23.75 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHHHHHhhCCC
Q psy2758 48 ENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 48 E~~~eFA~RVk~~IA~~~gl 67 (72)
++|.++|+|+++.|.++.|.
T Consensus 130 ~dPd~sA~~i~~~l~~~~g~ 149 (228)
T PF01996_consen 130 EDPDASARRIREELKERTGK 149 (228)
T ss_dssp S-HHHHHHHHHHHHHHHHS-
T ss_pred CCHHHHHHHHHHHHHHHHCC
Confidence 68999999999999988775
No 80
>TIGR02048 gshA_cyano glutamate--cysteine ligase, cyanobacterial, putative. This family consists of proteins believed (see Copley SD, Dhillon JK, 2002) to be the glutamate--cysteine ligases of several cyanobacteria, which are known to make glutathione.
Probab=27.13 E-value=1.5e+02 Score=23.13 Aligned_cols=44 Identities=9% Similarity=0.135 Sum_probs=38.2
Q ss_pred cccccCCChhHHHHHHHHhhcceeEEEEEEeCCccCCCCCCHHHHHHHHHHHHH
Q psy2758 9 DAFWNSSKYSMTHYLYMMMTSWAIVADVWYLPPMFQGQGENAVEFASRVKRAIS 62 (72)
Q Consensus 9 D~fWns~~~s~~~yl~~lMTsW~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA 62 (72)
-|||+-..-+|..|=..+..+|-. +||. -++.++|..-|+.+|+
T Consensus 150 SPf~~G~dTG~aS~R~~~~~~~P~------~pP~----f~~~~~y~~~~~~li~ 193 (376)
T TIGR02048 150 SPFLDGQVTGYHSTRWQMFPKTPQ------EVPL----FTSHAHFIEWTEEQLT 193 (376)
T ss_pred CccccCCCcchhhHHHHHHHhCCC------CCCC----cCCHHHHHHHHHHHHH
Confidence 489999999999999999999987 6664 5788899999999998
No 81
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=27.12 E-value=37 Score=21.00 Aligned_cols=11 Identities=36% Similarity=0.489 Sum_probs=9.0
Q ss_pred HHHHHhhCCCc
Q psy2758 58 KRAISKQGGLV 68 (72)
Q Consensus 58 k~~IA~~~gl~ 68 (72)
++.||+++|+.
T Consensus 44 ~SeIAkrlgi~ 54 (64)
T COG2093 44 KSEIAKRLGIK 54 (64)
T ss_pred HHHHHHHhCCC
Confidence 47899999975
No 82
>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]
Probab=27.11 E-value=46 Score=28.32 Aligned_cols=28 Identities=29% Similarity=0.488 Sum_probs=22.2
Q ss_pred eCCccCCCCCCHHHHHHHHHHHHHhhCCCccC
Q psy2758 39 LPPMFQGQGENAVEFASRVKRAISKQGGLVDL 70 (72)
Q Consensus 39 Lpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~l 70 (72)
+|+.++. ..+||.|+-..|+..+|+..+
T Consensus 532 vPVlT~~----G~~FasR~~~si~~~agi~e~ 559 (620)
T COG3914 532 VPVLTRV----GEQFASRNGASIATNAGIPEL 559 (620)
T ss_pred Cceeeec----cHHHHHhhhHHHHHhcCCchh
Confidence 4555543 457999999999999999875
No 83
>PRK14133 DNA polymerase IV; Provisional
Probab=26.77 E-value=88 Score=23.17 Aligned_cols=32 Identities=28% Similarity=0.397 Sum_probs=24.7
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||+.-.-. +++.++|+++++.|.++.|+.
T Consensus 103 De~~ldv~~~~--~~~~~la~~i~~~i~~~~gl~ 134 (347)
T PRK14133 103 DEAYLDITNIK--EEPIKIAKYIKKKVKKETGLT 134 (347)
T ss_pred CeEEEEccCCC--CCHHHHHHHHHHHHHHHHCCc
Confidence 45566654433 688999999999999988875
No 84
>cd00424 PolY Y-family of DNA polymerases. Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in ord
Probab=26.60 E-value=89 Score=23.10 Aligned_cols=34 Identities=29% Similarity=0.254 Sum_probs=25.2
Q ss_pred EEEEeCCccCC-CCCCHHHHHHHHHHHHHhhCC-Cc
Q psy2758 35 DVWYLPPMFQG-QGENAVEFASRVKRAISKQGG-LV 68 (72)
Q Consensus 35 dV~yLpp~~r~-~~E~~~eFA~RVk~~IA~~~g-l~ 68 (72)
|--||..-... ..+++.++|+++|+.|.++.| +.
T Consensus 99 DE~~ldvt~~~~~~~~~~~la~~i~~~i~~~~ggl~ 134 (343)
T cd00424 99 DELFLDLTGSARLLGLGSEVALRIKRHIAEQLGGIT 134 (343)
T ss_pred CEEEEECCCchhccCCHHHHHHHHHHHHHHHhCCce
Confidence 45666655442 235789999999999999887 74
No 85
>PRK14119 gpmA phosphoglyceromutase; Provisional
Probab=26.55 E-value=92 Score=21.76 Aligned_cols=19 Identities=16% Similarity=0.003 Sum_probs=15.8
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q psy2758 45 GQGENAVEFASRVKRAISK 63 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~ 63 (72)
..+||-.+|.+||.+.+.+
T Consensus 147 p~GES~~~~~~Rv~~~l~~ 165 (228)
T PRK14119 147 PYSESLKDTLVRVIPFWTD 165 (228)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 4699999999999987543
No 86
>cd02640 R3H_NRF R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=26.27 E-value=91 Score=18.36 Aligned_cols=18 Identities=17% Similarity=0.189 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhhCCCcc
Q psy2758 52 EFASRVKRAISKQGGLVD 69 (72)
Q Consensus 52 eFA~RVk~~IA~~~gl~~ 69 (72)
.+-.++=..||+++||..
T Consensus 28 ~~eR~~vH~~a~~~gL~s 45 (60)
T cd02640 28 KEERALIHQIAQKYGLKS 45 (60)
T ss_pred HHHHHHHHHHHHHcCCce
Confidence 345788899999999975
No 87
>cd01514 Elongation_Factor_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the ribosomal protection proteins Tet(M) and Tet(O), BipA, LepA and, spliceosomal proteins: human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and yeast counterpart Snu114p. This domain adopts a ferredoxin-like fold consisting of an alpha-beta sandwich with anti-parallel beta-sheets, resembling the topology of domain III found in the elongation factors EF-G and eukaryotic EF-2, with which it forms the C-terminal block. The two domains however are not superimposable and domain III lacks some of the characteristics of this domain. EF-2/EF-G in complex with GTP, promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the
Probab=26.24 E-value=38 Score=19.71 Aligned_cols=28 Identities=21% Similarity=0.270 Sum_probs=21.4
Q ss_pred CCccCCCCCCHHHHHHHHHHHHHhhCCC
Q psy2758 40 PPMFQGQGENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 40 pp~~r~~~E~~~eFA~RVk~~IA~~~gl 67 (72)
+|+.+-+=+.|.++..+|-+.|+++.|-
T Consensus 1 EPi~~~~I~~p~~~~g~v~~~l~~rrg~ 28 (79)
T cd01514 1 EPIMKVEITVPEEYLGAVIGDLSKRRGE 28 (79)
T ss_pred CCEEEEEEEcCHHHHHHHHHHHHhcCCe
Confidence 3555555677889999999999987764
No 88
>PF07687 M20_dimer: Peptidase dimerisation domain This family only corresponds to M20 family; InterPro: IPR011650 This domain consists of 4 beta strands and two alpha helices which make up the dimerisation surface of members of the MEROPS peptidase family M20 []. This family includes a range of zinc exopeptidases: carboxypeptidases, dipeptidases and specialised aminopeptidases [].; GO: 0016787 hydrolase activity; PDB: 3GB0_A 2F7V_A 1R3N_C 2VL1_D 2V8V_C 1R43_B 2V8G_B 2V8H_D 2V8D_A 3PFE_A ....
Probab=25.93 E-value=1.4e+02 Score=17.60 Aligned_cols=27 Identities=22% Similarity=0.340 Sum_probs=19.2
Q ss_pred eEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhh
Q psy2758 32 IVADVWYLPPMFQGQGENAVEFASRVKRAISKQ 64 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~ 64 (72)
+.+|++++|++. ..+.-+.+++.+.+.
T Consensus 81 ~~~~~R~~p~~~------~~~i~~~i~~~~~~~ 107 (111)
T PF07687_consen 81 LTVDIRYPPGED------LEEIKAEIEAAVEKI 107 (111)
T ss_dssp EEEEEEESTCHH------HHHHHHHHHHHHHHH
T ss_pred EEEEEECCCcch------HHHHHHHHHHHHHHh
Confidence 567888887654 677777777777653
No 89
>PRK04013 argD acetylornithine/acetyl-lysine aminotransferase; Provisional
Probab=25.67 E-value=61 Score=24.65 Aligned_cols=30 Identities=23% Similarity=0.380 Sum_probs=25.4
Q ss_pred EEEeCCccCCCCCCHHHHHHHHHHHHHhhCC
Q psy2758 36 VWYLPPMFQGQGENAVEFASRVKRAISKQGG 66 (72)
Q Consensus 36 V~yLpp~~r~~~E~~~eFA~RVk~~IA~~~g 66 (72)
+...||.... +|...++.+|+++.|.+-+|
T Consensus 334 lr~~Ppl~it-~~~i~~~~~~l~~~l~~~~~ 363 (364)
T PRK04013 334 IRLLPPLIIS-KDTMEEAKSAIEGVINDILG 363 (364)
T ss_pred EEEeCCcccC-HHHHHHHHHHHHHHHHHHhc
Confidence 6899999887 57778899999999987665
No 90
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].
Probab=25.64 E-value=69 Score=24.55 Aligned_cols=40 Identities=30% Similarity=0.361 Sum_probs=26.6
Q ss_pred eEEEEEEeCCccCCCCC---CHHHHHHHHHHHHHhhCCCccCCC
Q psy2758 32 IVADVWYLPPMFQGQGE---NAVEFASRVKRAISKQGGLVDLMW 72 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E---~~~eFA~RVk~~IA~~~gl~~l~W 72 (72)
.+++.-|-|||.-.++- .+.+...+| ..||+++||..+=|
T Consensus 21 a~VeaIYEPpQ~~~~d~~~l~~d~~~~~v-d~iA~~lGL~rVG~ 63 (306)
T PF05021_consen 21 AVVEAIYEPPQEGEPDGFTLLPDENEERV-DAIASALGLERVGW 63 (306)
T ss_pred EEEEEEECCCcCCCCCCEEEcCCccHHHH-HHHHHHCCCEEEEE
Confidence 57888999999743221 112345666 46899999986644
No 91
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=25.58 E-value=72 Score=27.16 Aligned_cols=24 Identities=29% Similarity=0.344 Sum_probs=19.3
Q ss_pred CCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 46 QGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
.-|+|.+|++|+.++|...+|+..
T Consensus 649 ~leDp~~f~~Ri~~lL~~~l~~~~ 672 (701)
T PTZ00272 649 QLEDPTGYAERINRMIKLGLSLDE 672 (701)
T ss_pred CccCHHHHHHHHHHHHHHhcCCCc
Confidence 467888999999999976677653
No 92
>PRK02406 DNA polymerase IV; Validated
Probab=25.47 E-value=1.9e+02 Score=21.26 Aligned_cols=34 Identities=24% Similarity=0.137 Sum_probs=25.0
Q ss_pred EEEEeCCccC-CCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQ-GQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r-~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||..-.- +...++.++|+++|+.|.++.|+.
T Consensus 95 De~~ldvt~~~~~~~~~~~la~~i~~~i~~~~gl~ 129 (343)
T PRK02406 95 DEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLT 129 (343)
T ss_pred CeEEEeccCccccCCCHHHHHHHHHHHHHHHHCCC
Confidence 5556654432 334578899999999999988875
No 93
>COG5636 Uncharacterized conserved protein, contains Zn-ribbon-like motif [Function unknown]
Probab=25.35 E-value=29 Score=26.60 Aligned_cols=16 Identities=50% Similarity=0.904 Sum_probs=13.3
Q ss_pred CCCccccccccccCCC
Q psy2758 1 MCGICRFGDAFWNSSK 16 (72)
Q Consensus 1 ~~~~~~fgD~fWns~~ 16 (72)
-|||...||||=-|--
T Consensus 240 ~CGnCylGDAFRCSGC 255 (284)
T COG5636 240 ACGNCYLGDAFRCSGC 255 (284)
T ss_pred ccccccccccceecCC
Confidence 3999999999976654
No 94
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=25.29 E-value=1.2e+02 Score=16.61 Aligned_cols=32 Identities=9% Similarity=0.052 Sum_probs=25.0
Q ss_pred EEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 34 ADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 34 ~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
..|...+. +..|.-.+++.++-.++++.+|+.
T Consensus 4 i~I~~~~g---rs~eqk~~l~~~it~~l~~~~~~p 35 (62)
T PRK00745 4 FHIELFEG---RTVEQKRKLVEEITRVTVETLGCP 35 (62)
T ss_pred EEEEEcCC---CCHHHHHHHHHHHHHHHHHHcCCC
Confidence 45666654 357888899999999999999875
No 95
>PF15201 Rod_cone_degen: Progressive rod-cone degeneration
Probab=25.14 E-value=17 Score=21.64 Aligned_cols=13 Identities=38% Similarity=0.409 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHh
Q psy2758 51 VEFASRVKRAISK 63 (72)
Q Consensus 51 ~eFA~RVk~~IA~ 63 (72)
..||||||.+=+.
T Consensus 17 rrfanrvqpeps~ 29 (54)
T PF15201_consen 17 RRFANRVQPEPSG 29 (54)
T ss_pred HHHhccCCCCCCC
Confidence 3699999876544
No 96
>PRK14120 gpmA phosphoglyceromutase; Provisional
Probab=24.87 E-value=1e+02 Score=22.29 Aligned_cols=18 Identities=11% Similarity=-0.003 Sum_probs=15.5
Q ss_pred CCCCCHHHHHHHHHHHHH
Q psy2758 45 GQGENAVEFASRVKRAIS 62 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA 62 (72)
..+|+..+|.+||.+.|.
T Consensus 148 p~GES~~~~~~Rv~~~l~ 165 (249)
T PRK14120 148 PRTECLKDVVARFLPYWE 165 (249)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 468999999999998754
No 97
>cd04673 Nudix_Hydrolase_15 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=24.66 E-value=1.2e+02 Score=18.03 Aligned_cols=30 Identities=27% Similarity=0.386 Sum_probs=23.2
Q ss_pred EEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 36 VWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 36 V~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
.|-+|--..+.+|++.+=|. .++.++.|+.
T Consensus 26 ~w~~PgG~ie~gE~~~~aa~---RE~~EEtGl~ 55 (122)
T cd04673 26 LWSFPGGKVELGETLEQAAL---RELLEETGLE 55 (122)
T ss_pred eEECCCcccCCCCCHHHHHH---HHHHHhhCcE
Confidence 46788888899999988777 4666777765
No 98
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=24.60 E-value=84 Score=17.96 Aligned_cols=20 Identities=15% Similarity=0.270 Sum_probs=14.3
Q ss_pred CHHHHHHHHHHHHHhhCCCcc
Q psy2758 49 NAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 49 ~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+..+|++.||.++. ++|+..
T Consensus 29 ~s~~ll~~v~~lL~-~lGi~~ 48 (77)
T PF14528_consen 29 KSKELLEDVQKLLL-RLGIKA 48 (77)
T ss_dssp S-HHHHHHHHHHHH-HTT--E
T ss_pred CCHHHHHHHHHHHH-HCCCee
Confidence 67799999999886 688764
No 99
>PF00317 Ribonuc_red_lgN: Ribonucleotide reductase, all-alpha domain; InterPro: IPR013509 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The reduction of ribonucleotides to deoxyribonucleotides involves the transfer of free radicals, the function of each metallocofactor is to generate an active site thiyl radical. This thiyl radical then initiates the nucleotide reduction process by hydrogen atom abstraction from the ribonucleotide []. The radical-based reaction involves five cysteines: two of these are located at adjacent anti-parallel strands in a new type of ten-stranded alpha/beta-barrel; two others reside at the carboxyl end in a flexible arm; and the fifth, in a loop in the centre of the barrel, is positioned to initiate the radical reaction []. There are several regions of similarity in the sequence of the large chain of prokaryotes, eukaryotes and viruses spread across 3 domains: an N-terminal domain common to the mammalian and bacterial enzymes; a C-terminal domain common to the mammalian and viral ribonucleotide reductases; and a central domain common to all three [].; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0005524 ATP binding, 0006260 DNA replication, 0055114 oxidation-reduction process; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A 1XJN_A 1XJK_A 3O0O_B 1XJF_A 3O0Q_A ....
Probab=24.56 E-value=81 Score=18.97 Aligned_cols=19 Identities=26% Similarity=0.200 Sum_probs=15.3
Q ss_pred CCCHHHHHHHHHHHHHhhC
Q psy2758 47 GENAVEFASRVKRAISKQG 65 (72)
Q Consensus 47 ~E~~~eFA~RVk~~IA~~~ 65 (72)
.|+|+++..||=..||..-
T Consensus 25 ~Etpq~~~~RVA~~la~~e 43 (83)
T PF00317_consen 25 IETPQEMFMRVAMALASAE 43 (83)
T ss_dssp --SHHHHHHHHHHHHHTCC
T ss_pred eeCHHHHHHHHHHHHHHHc
Confidence 4999999999999999743
No 100
>PRK07079 hypothetical protein; Provisional
Probab=24.55 E-value=1.5e+02 Score=22.84 Aligned_cols=26 Identities=12% Similarity=0.345 Sum_probs=20.5
Q ss_pred EEEEEEeCCccCCCCCCHHHHHHHHHHHHHhh
Q psy2758 33 VADVWYLPPMFQGQGENAVEFASRVKRAISKQ 64 (72)
Q Consensus 33 V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~ 64 (72)
.+|++++| ++++.+..+++++.|++.
T Consensus 328 ~vdiR~~P------~~~~e~v~~~l~~~i~~~ 353 (469)
T PRK07079 328 VCQLRFVV------GTDWENLAPHLRAHLDAH 353 (469)
T ss_pred EEEEEcCC------CCCHHHHHHHHHHHHHhc
Confidence 35777765 678889999999999874
No 101
>PF00300 His_Phos_1: Histidine phosphatase superfamily (branch 1); InterPro: IPR013078 The histidine phosphatase superfamily is so named because catalysis centres on a conserved His residue that is transiently phosphorylated during the catalytic cycle. Other conserved residues contribute to a 'phosphate pocket' and interact with the phospho group of substrate before, during and after its transfer to the His residue. Structure and sequence analyses show that different families contribute different additional residues to the 'phosphate pocket' and, more surprisingly, differ in the position, in sequence and in three dimensions, of a catalytically essential acidic residue. The superfamily may be divided into two main branches. The relationship between the two branches is not evident by (PSI-)BLAST but is clear from more sensitive sequence searches and structural comparisons []. The larger branch 1 contains a wide variety of catalytic functions, the best known being fructose 2,6-bisphosphatase (found in a bifunctional protein with 2-phosphofructokinase) and cofactor-dependent phosphoglycerate mutase. The latter is an unusual example of a mutase activity in the superfamily: the vast majority of members appear to be phosphatases. The bacterial regulatory protein phosphatase SixA is also in branch 1 and has a minimal, and possible ancestral-like structure, lacking the large domain insertions that contribute to binding of small molecules in branch 1 members. Phosphoglycerate mutase (5.4.2.1 from EC) (PGAM) and bisphosphoglycerate mutase (5.4.2.4 from EC) (BPGM) are structurally related enzymes that catalyse reactions involving the transfer of phospho groups between the three carbon atoms of phosphoglycerate [, , ]. Both enzymes can catalyse three different reactions with different specificities, the isomerization of 2-phosphoglycerate (2-PGA) to 3-phosphoglycerate (3-PGA) with 2,3-diphosphoglycerate (2,3-DPG) as the primer of the reaction, the synthesis of 2,3-DPG from 1,3-DPG with 3-PGA as a primer and the degradation of 2,3-DPG to 3-PGA (phosphatase 3.1.3.13 from EC activity). In mammals, PGAM is a dimeric protein with two isoforms, the M (muscle) and B (brain) forms. In yeast, PGAM is a tetrameric protein. BPGM is a dimeric protein and is found mainly in erythrocytes where it plays a major role in regulating haemoglobin oxygen affinity as a consequence of controlling 2,3-DPG concentration. The catalytic mechanism of both PGAM and BPGM involves the formation of a phosphohistidine intermediate []. A number of other proteins including, the bifunctional enzyme 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase [] that catalyses both the synthesis and the degradation of fructose-2,6-bisphosphate and bacterial alpha-ribazole-5'-phosphate phosphatase, which is involved in cobalamin biosynthesis, contain this domain [].; PDB: 1C80_A 1C7Z_B 1TIP_B 1C81_A 1FBT_A 1RII_B 3OI7_B 3LL4_A 3LG2_B 3F3K_B ....
Probab=24.43 E-value=69 Score=19.70 Aligned_cols=18 Identities=33% Similarity=0.543 Sum_probs=15.6
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
.+|+..+|..||++.+.+
T Consensus 118 ~~Es~~~~~~R~~~~~~~ 135 (158)
T PF00300_consen 118 GGESWEDFQQRVKQFLDE 135 (158)
T ss_dssp TSHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHH
Confidence 689999999999987754
No 102
>PF08883 DOPA_dioxygen: Dopa 4,5-dioxygenase family; InterPro: IPR014980 This family of proteins is related to P87064 from SWISSPROT a DOPA 4,5-dioxygenase that is involved in synthesis of betalain. DOPA-dioxygenase is the key enzyme involved in betalain biosynthesis. It converts 3,4-dihydroxyphenylalanine to betalamic acid, a yellow chromophore. ; PDB: 2NYH_A 2P8I_C.
Probab=24.39 E-value=1.2e+02 Score=19.88 Aligned_cols=25 Identities=24% Similarity=0.396 Sum_probs=20.1
Q ss_pred EEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCC
Q psy2758 34 ADVWYLPPMFQGQGENAVEFASRVKRAISKQGG 66 (72)
Q Consensus 34 ~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~g 66 (72)
+.|+| +++..++|..+++.|+++-+
T Consensus 3 aHvYf--------d~~~~~~A~~Lre~i~~~f~ 27 (104)
T PF08883_consen 3 AHVYF--------DAAEREFARALRERIREEFP 27 (104)
T ss_dssp EEEEE---------GGGHHHHHHHHHHHHHHTT
T ss_pred EEEEc--------CHHHHHHHHHHHHHHHHHhh
Confidence 45777 57788999999999998876
No 103
>cd04696 Nudix_Hydrolase_37 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=24.32 E-value=1e+02 Score=18.89 Aligned_cols=31 Identities=26% Similarity=0.347 Sum_probs=23.5
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
+.|.||==..+.+||+.+=|. .++.++.|+.
T Consensus 26 ~~w~lPGG~ve~gEs~~~aa~---REl~EEtGl~ 56 (125)
T cd04696 26 GLWGVPGGKVEWGETLEEALK---REFREETGLK 56 (125)
T ss_pred CcEeCCceeccCCCCHHHHHH---HHHHHHhCCc
Confidence 468888888899999776555 5777777774
No 104
>PRK01810 DNA polymerase IV; Validated
Probab=23.80 E-value=1.1e+02 Score=23.28 Aligned_cols=34 Identities=18% Similarity=0.038 Sum_probs=25.6
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||..-......++.++|.++|+.|.++.|+.
T Consensus 107 De~~ldvt~~~~~~~~~~~a~~i~~~i~~~~gl~ 140 (407)
T PRK01810 107 DEGYLDITDCYALGSPLEIAKMIQQRLLTELQLP 140 (407)
T ss_pred CeEEEeccCccccCCHHHHHHHHHHHHHHHHCCc
Confidence 4556665544444578999999999999988875
No 105
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=23.78 E-value=82 Score=20.95 Aligned_cols=23 Identities=17% Similarity=0.446 Sum_probs=18.5
Q ss_pred CCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 46 QGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
.++++.+++.++.++|.++.|+.
T Consensus 49 ~~~~~~~l~~~ie~~l~~~fG~~ 71 (137)
T PF08002_consen 49 SDRDPAELAAKIEKALEERFGFD 71 (137)
T ss_dssp ESS-HHHHHHHHHHHHHHH-TT-
T ss_pred cCCChHHHHHHHHHHHHHhcCCC
Confidence 47899999999999999999974
No 106
>cd03425 MutT_pyrophosphohydrolase The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic pyrophosphate (PPi). This enzyme requires two divalent cations for activity; one coordinates the phosphoryl groups of the NTP/dNTP substrate, and the other coordinates to the enzyme. It also contains the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as metal binding and catalytic site. MutT pyrophosphohydrolase is important in preventing errors in DNA replication by hydrolyzing mutagenic nucleotides such as 8-oxo-dGTP (a product of oxidative damage), which can mispair with template adenine during DNA replication, to guanine nucleotides.
Probab=23.72 E-value=1.4e+02 Score=17.48 Aligned_cols=30 Identities=20% Similarity=0.352 Sum_probs=20.5
Q ss_pred EEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 36 VWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 36 V~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
.|=+|--...++|++.+-|.| ++.++.|+.
T Consensus 29 ~w~~p~G~~~~~e~~~~~a~R---e~~EE~g~~ 58 (124)
T cd03425 29 LWEFPGGKVEPGETPEQALVR---ELREELGIE 58 (124)
T ss_pred eEeCCCcccCCCCCHHHHHHH---HHHHhhCcE
Confidence 344665566789999887764 566777764
No 107
>cd07983 LPLAT_DUF374-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are the uncharacterized DUF374 phospholipid/glycerol acyltransferases and similar proteins.
Probab=23.60 E-value=1.7e+02 Score=19.26 Aligned_cols=31 Identities=6% Similarity=0.044 Sum_probs=20.4
Q ss_pred EEEEEEeCCccCCCCCCHHHHHHHHHHHHHhh
Q psy2758 33 VADVWYLPPMFQGQGENAVEFASRVKRAISKQ 64 (72)
Q Consensus 33 V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~ 64 (72)
-+.|.+.||....++++ .+..+++.+.+-+.
T Consensus 156 ~~~v~~~~pi~~~~~~~-~~~~~~~~~~~~~~ 186 (189)
T cd07983 156 RVVIVFGEPIHVPPDAD-EEELEEYRLELEAA 186 (189)
T ss_pred ceEEEEeCCEeeCCCCC-HHHHHHHHHHHHHH
Confidence 37788999998766655 55555555555443
No 108
>cd04689 Nudix_Hydrolase_30 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U=I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate sp
Probab=23.49 E-value=1.4e+02 Score=18.18 Aligned_cols=30 Identities=23% Similarity=0.381 Sum_probs=23.0
Q ss_pred EEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 36 VWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 36 V~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
-|.+|==..+.+|++.+=|. .++.++.|+.
T Consensus 24 ~~~lPGG~ve~gEt~~~aa~---REl~EEtGl~ 53 (125)
T cd04689 24 HYFLPGGHVEPGETAENALR---RELQEELGVA 53 (125)
T ss_pred CEECCCCcCCCCCCHHHHHH---HHHHHHhCce
Confidence 36688888899999888776 5677777764
No 109
>PTZ00123 phosphoglycerate mutase like-protein; Provisional
Probab=23.33 E-value=94 Score=22.00 Aligned_cols=17 Identities=18% Similarity=-0.021 Sum_probs=14.7
Q ss_pred CCCCCHHHHHHHHHHHH
Q psy2758 45 GQGENAVEFASRVKRAI 61 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~I 61 (72)
..+|+..+|..||.+.|
T Consensus 134 p~gES~~~~~~Rv~~~l 150 (236)
T PTZ00123 134 PNTECLKDTVERVLPYW 150 (236)
T ss_pred CCCCCHHHHHHHHHHHH
Confidence 45999999999999864
No 110
>CHL00124 acpP acyl carrier protein; Validated
Probab=22.90 E-value=95 Score=18.14 Aligned_cols=19 Identities=16% Similarity=0.296 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHhhCCCc
Q psy2758 50 AVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 50 ~~eFA~RVk~~IA~~~gl~ 68 (72)
..+...+|+++||+.+|+.
T Consensus 3 ~~~i~~~l~~ii~~~~~~~ 21 (82)
T CHL00124 3 KNDIFEKVQSIVAEQLGIE 21 (82)
T ss_pred HHHHHHHHHHHHHHHHCCC
Confidence 3567889999999998874
No 111
>KOG0420|consensus
Probab=22.48 E-value=70 Score=23.39 Aligned_cols=16 Identities=38% Similarity=0.536 Sum_probs=13.2
Q ss_pred CCHHHHHHHHHHHHHh
Q psy2758 48 ENAVEFASRVKRAISK 63 (72)
Q Consensus 48 E~~~eFA~RVk~~IA~ 63 (72)
++..+|+++|+..|..
T Consensus 157 ~n~e~F~~~Vr~~m~g 172 (184)
T KOG0420|consen 157 SNREGFENNVRRAMSG 172 (184)
T ss_pred hCHHHHHHHHHHHHhc
Confidence 5678899999998864
No 112
>PRK03858 DNA polymerase IV; Validated
Probab=22.44 E-value=87 Score=23.52 Aligned_cols=34 Identities=24% Similarity=0.268 Sum_probs=25.3
Q ss_pred EEEEeCCccC-CCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQ-GQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r-~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||..-.. +...++.++|.++|+.|+++.|+.
T Consensus 100 De~~ldvt~~~~~~~~~~~la~~ir~~i~~~~gl~ 134 (396)
T PRK03858 100 DEAFLDVGGLRRISGTPVQIAARLRRRVREEVGLP 134 (396)
T ss_pred CeEEEEccccccccCCHHHHHHHHHHHHHHHHCCC
Confidence 5566665543 223578999999999999988875
No 113
>PF13866 zf-SAP30: SAP30 zinc-finger; PDB: 2KDP_A 2LD7_A.
Probab=22.31 E-value=62 Score=20.68 Aligned_cols=15 Identities=7% Similarity=0.581 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHhh
Q psy2758 50 AVEFASRVKRAISKQ 64 (72)
Q Consensus 50 ~~eFA~RVk~~IA~~ 64 (72)
..-|++|+|+.||++
T Consensus 27 nas~SKRiqktv~Qk 41 (78)
T PF13866_consen 27 NASYSKRIQKTVAQK 41 (78)
T ss_dssp S----HHHHHHHHHH
T ss_pred ChhHHHHHHHHHHHh
Confidence 345999999999985
No 114
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=22.29 E-value=1.2e+02 Score=24.06 Aligned_cols=39 Identities=15% Similarity=0.204 Sum_probs=29.1
Q ss_pred HHHHhhcceeEEEEEEeCCccCCCCCCHHHHHHHHHHHH
Q psy2758 23 LYMMMTSWAIVADVWYLPPMFQGQGENAVEFASRVKRAI 61 (72)
Q Consensus 23 l~~lMTsW~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~I 61 (72)
|..+++.|...++=-+=.-+...+||+.+||-+|=+..+
T Consensus 68 l~~~l~a~l~~~~ei~p~e~i~~~G~sdee~~~~n~~~m 106 (342)
T COG3480 68 LITYLYAWLSPQEEIVPREQVTPPGESDEEYERRNQFYM 106 (342)
T ss_pred HHHHHHhhhCCceeecchhhcCCCCCcHHHHHHHHHHHH
Confidence 556777888888766655566677999999988865543
No 115
>cd04667 Nudix_Hydrolase_10 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=22.24 E-value=1.6e+02 Score=17.72 Aligned_cols=31 Identities=29% Similarity=0.472 Sum_probs=23.7
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
+-|-+|--..+++|++.+=|. .++.++.|+.
T Consensus 21 ~~w~~PgG~ve~gE~~~~aa~---REl~EEtGl~ 51 (112)
T cd04667 21 SRWALPGGKIEPGETPLQAAR---RELQEETGLQ 51 (112)
T ss_pred CcEeCCCCcCCCCCCHHHHHH---HHHHHHhCCc
Confidence 456788888899999886655 5777888875
No 116
>cd04682 Nudix_Hydrolase_23 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=22.20 E-value=1.5e+02 Score=18.05 Aligned_cols=31 Identities=29% Similarity=0.470 Sum_probs=23.6
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
+.|-+|--..+.+|++.+=|. .++.+++|+.
T Consensus 29 g~w~~PgG~ve~gE~~~~aa~---RE~~EE~Gl~ 59 (122)
T cd04682 29 GHWDLPGGHREGGETPLECVL---RELLEEIGLT 59 (122)
T ss_pred CcEeCCCccccCCCCHHHHHH---HHHHHHhCCc
Confidence 467888888899999988555 5666777765
No 117
>PRK13463 phosphatase PhoE; Provisional
Probab=21.83 E-value=99 Score=21.09 Aligned_cols=18 Identities=28% Similarity=0.314 Sum_probs=15.3
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
.+|+..+|+.||+..+..
T Consensus 119 ~gEs~~~~~~R~~~~l~~ 136 (203)
T PRK13463 119 SGENFEAVHKRVIEGMQL 136 (203)
T ss_pred CCeEHHHHHHHHHHHHHH
Confidence 689999999999886643
No 118
>COG3688 Predicted RNA-binding protein containing a PIN domain [General function prediction only]
Probab=21.83 E-value=1.5e+02 Score=21.55 Aligned_cols=31 Identities=29% Similarity=0.457 Sum_probs=23.9
Q ss_pred eeEEEEEEeCCccC------------CCCCCHHHHHHHHHHHH
Q psy2758 31 AIVADVWYLPPMFQ------------GQGENAVEFASRVKRAI 61 (72)
Q Consensus 31 ~~V~dV~yLpp~~r------------~~~E~~~eFA~RVk~~I 61 (72)
.+|+|-.|.|-..+ +++|||.+|-+|.-..+
T Consensus 52 ivVFDA~~v~g~~~~~~~~~vsvvyT~~~ETADs~IEr~~~el 94 (173)
T COG3688 52 IVVFDAHYVPGVGREYKNHRVSVVYTKEGETADSFIERYVAEL 94 (173)
T ss_pred EEEEEccccccccccccccceEEEEecCCccHHHHHHHHHHHH
Confidence 46888888886544 68999999999865444
No 119
>cd04680 Nudix_Hydrolase_21 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=21.76 E-value=1.6e+02 Score=17.49 Aligned_cols=31 Identities=32% Similarity=0.414 Sum_probs=22.7
Q ss_pred EEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 36 VWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 36 V~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
.|-+|--..+.+|++.+=|. .++.++.|+..
T Consensus 24 ~w~~PgG~ve~gEt~~~aa~---REl~EEtG~~~ 54 (120)
T cd04680 24 GWYLPGGGLERGETFAEAAR---RELLEELGIRL 54 (120)
T ss_pred cEeCCCCcCCCCCCHHHHHH---HHHHHHHCCcc
Confidence 46688778899999877665 56777777654
No 120
>PRK10546 pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase; Provisional
Probab=21.73 E-value=1.6e+02 Score=18.03 Aligned_cols=31 Identities=16% Similarity=0.303 Sum_probs=21.1
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
..|-+|=-..+++|++.+ -++.++.++.|+.
T Consensus 30 g~w~~PgG~ve~gE~~~~---a~~RE~~EE~Gl~ 60 (135)
T PRK10546 30 GLWEFAGGKVEPGESQPQ---ALIRELREELGIE 60 (135)
T ss_pred CcEECCcccCCCCCCHHH---HHHHHHHHHHCCc
Confidence 356777666688999985 2446666666765
No 121
>PF02023 SCAN: SCAN domain; InterPro: IPR003309 A number of C2H2-zinc finger proteins contain a highly conserved N-terminal motif termed the SCAN domain. The SCAN domain may play an important role in the assembly and function of this newly defined subclass of transcriptional regulators [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3LHR_B 4E6S_A 2FI2_A 1Y7Q_A.
Probab=21.71 E-value=1.1e+02 Score=19.27 Aligned_cols=19 Identities=32% Similarity=0.426 Sum_probs=15.5
Q ss_pred cCCCCCCHHHHHHHHHHHH
Q psy2758 43 FQGQGENAVEFASRVKRAI 61 (72)
Q Consensus 43 ~r~~~E~~~eFA~RVk~~I 61 (72)
..+++++|.+|+.|.+..-
T Consensus 13 ~~~~~~~p~e~~~rL~~l~ 31 (95)
T PF02023_consen 13 QYQEGEGPREFLSRLRELC 31 (95)
T ss_dssp -CCTTTSHHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHH
Confidence 4678999999999988764
No 122
>PF01520 Amidase_3: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002508 The cell wall envelope of Gram-positive bacteria is a macromolecular, exoskeletal organelle that is assembled and turned over at designated sites. The cell wall also functions as a surface organelle that allows Gram-positive pathogens to interact with their environment, in particular the tissues of the infected host. All of these functions require that surface proteins and enzymes be properly targeted to the cell wall envelope. Two basic mechanisms, cell wall sorting and targeting, have been identified. Cell well sorting is the covalent attachment of surface proteins to the peptidoglycan via a C-terminal sorting signal that contains a consensus LPXTG sequence. More than 100 proteins that possess cell wall-sorting signals, including the M proteins of Streptococcus pyogenes, protein A of Staphylococcus aureus, and several internalins of Listeria monocytogenes, have been identified. Cell wall targeting involves the noncovalent attachment of proteins to the cell surface via specialised binding domains. Several of these wall-binding domains appear to interact with secondary wall polymers that are associated with the peptidoglycan, for example teichoic acids and polysaccharides. Proteins that are targeted to the cell surface include muralytic enzymes such as autolysins, lysostaphin, and phage lytic enzymes. Other examples for targeted proteins are the surface S-layer proteins of bacilli and clostridia, as well as virulence factors required for the pathogenesis of L. monocytogenes (internalin B) and Streptococcus pneumoniae (PspA) infections []. Autolysin 3.5.1.28 from EC hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell wall glycopeptides.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 3QAY_A 3CZX_A 1JWQ_A 1XOV_A 3NE8_A.
Probab=21.36 E-value=77 Score=20.63 Aligned_cols=35 Identities=20% Similarity=0.372 Sum_probs=24.5
Q ss_pred eEEEEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 32 IVADVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 32 ~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
.-++|+|.++ ......+.+||++++..+.+..|+.
T Consensus 85 ~G~ev~~~~~--~~~~~~s~~lA~~i~~~l~~~~~~~ 119 (175)
T PF01520_consen 85 RGTEVYYSYN--SSNSAKSKKLAKSIQKELSKRTGLP 119 (175)
T ss_dssp -SEEEEEHHH--CCCCHHHHHHHHHHHHHHHHCHTTE
T ss_pred CceEEEEecc--cccchhhHHHHHHHHHHHhhhhccc
Confidence 3456666222 2345778899999999999988864
No 123
>PF14223 UBN2: gag-polypeptide of LTR copia-type
Probab=21.36 E-value=84 Score=19.41 Aligned_cols=21 Identities=29% Similarity=0.445 Sum_probs=17.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHh
Q psy2758 43 FQGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 43 ~r~~~E~~~eFA~RVk~~IA~ 63 (72)
+..++|+-.+|.+|++.++.+
T Consensus 36 k~~~~~sv~~y~~~~~~i~~~ 56 (119)
T PF14223_consen 36 KMKDGESVDEYISRLKEIVDE 56 (119)
T ss_pred HhcccccHHHHHHHHHHhhhh
Confidence 347899999999999987765
No 124
>cd00673 AlaRS_core Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its predicted structure and the presence of three characteristic sequence motifs.
Probab=21.35 E-value=49 Score=24.75 Aligned_cols=25 Identities=24% Similarity=0.618 Sum_probs=19.4
Q ss_pred CCCccccccccccCCChhHHHHHHHHhhc
Q psy2758 1 MCGICRFGDAFWNSSKYSMTHYLYMMMTS 29 (72)
Q Consensus 1 ~~~~~~fgD~fWns~~~s~~~yl~~lMTs 29 (72)
|.||-.||| ||-... +.|-..++|+
T Consensus 85 MLGNfSFgd-YFK~ea---I~~awe~LT~ 109 (232)
T cd00673 85 MLGNFSFGD-YFKEEA---IAFAWELLTE 109 (232)
T ss_pred hhcccchhh-hhHHHH---HHHHHHHHHh
Confidence 789999999 776554 6777777886
No 125
>PF02093 Gag_p30: Gag P30 core shell protein; InterPro: IPR003036 P30 is essential for viral assembly []. Cleavage of P70 in vitro can be accompanied by a shift from a concentrically coiled internal strand ("immature") to a collapsed ("mature") form of the virus core [].; GO: 0019068 virion assembly; PDB: 3BP9_U 1U7K_D 2Y4Z_A 1BM4_A.
Probab=21.32 E-value=55 Score=24.28 Aligned_cols=30 Identities=30% Similarity=0.448 Sum_probs=19.6
Q ss_pred hcceeEEEEEEeCCccCCCCCCHHHHHHHHHHHHHh
Q psy2758 28 TSWAIVADVWYLPPMFQGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 28 TsW~~V~dV~yLpp~~r~~~E~~~eFA~RVk~~IA~ 63 (72)
|.|+-|.+ +....+|+|..|-+|.+++.-+
T Consensus 124 ~NlsKv~~------v~Qg~~EsPs~FLeRL~ea~r~ 153 (211)
T PF02093_consen 124 TNLSKVRE------VTQGPNESPSAFLERLREAYRK 153 (211)
T ss_dssp ----S--T------TTTTGGGHHHHHHHHHHHHHHH
T ss_pred ccHHHHHH------HHhCCCCCHHHHHHHHHHHHHh
Confidence 44555444 3678899999999999988644
No 126
>CHL00130 rbcS ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
Probab=21.30 E-value=94 Score=21.77 Aligned_cols=21 Identities=29% Similarity=0.483 Sum_probs=16.9
Q ss_pred EEeCCccCCCCCCHHHHHHHHHHHHHh
Q psy2758 37 WYLPPMFQGQGENAVEFASRVKRAISK 63 (72)
Q Consensus 37 ~yLpp~~r~~~E~~~eFA~RVk~~IA~ 63 (72)
-||||++ .+|-++-|+-+|++
T Consensus 9 SyLPpLT------deqI~kQI~Y~i~~ 29 (138)
T CHL00130 9 SFLPDLT------DQQIEKQIQYAISK 29 (138)
T ss_pred ccCCCCC------HHHHHHHHHHHHhc
Confidence 5899996 66788888888876
No 127
>PF02033 RBFA: Ribosome-binding factor A; InterPro: IPR000238 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosome-binding factor A [] (gene rbfA) is a bacterial protein that associates with free 30S ribosomal subunits. It does not associate with 30S subunits that are part of 70S ribosomes or polysomes. It is essential for efficient processing of 16S rRNA. Ribosome-binding factor A is a protein of from 13 to 15 Kd which is found in most bacteria. A putative chloroplastic form seems to exist in plants.; GO: 0006364 rRNA processing; PDB: 2R1C_A 2DYJ_B 2KZF_A 2E7G_A 1JOS_A 1KKG_A 1PA4_A.
Probab=21.24 E-value=93 Score=19.29 Aligned_cols=18 Identities=17% Similarity=0.218 Sum_probs=14.2
Q ss_pred HHHHHHHHHhhCCCccCC
Q psy2758 54 ASRVKRAISKQGGLVDLM 71 (72)
Q Consensus 54 A~RVk~~IA~~~gl~~l~ 71 (72)
+..++..||+++++.-+|
T Consensus 67 ~~~iR~~l~~~l~lr~~P 84 (104)
T PF02033_consen 67 AGFIRHELAKRLNLRRVP 84 (104)
T ss_dssp HHHHHHHHHHHTTSSSG-
T ss_pred HHHHHHHHHhhcCCCcCC
Confidence 556899999999987665
No 128
>PRK02812 ribose-phosphate pyrophosphokinase; Provisional
Probab=21.07 E-value=64 Score=24.70 Aligned_cols=37 Identities=27% Similarity=0.321 Sum_probs=28.5
Q ss_pred hhcceeEEEEEEeCCccCCCC------CCHHHHHHHHHHHHHhhCCC
Q psy2758 27 MTSWAIVADVWYLPPMFQGQG------ENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 27 MTsW~~V~dV~yLpp~~r~~~------E~~~eFA~RVk~~IA~~~gl 67 (72)
|||+++...-.-||-.+.+.+ .+..+||++| |+++|+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~i~~g~~~~~la~~i----a~~lg~ 43 (330)
T PRK02812 1 MTSFATAARAEQLPLLSDNNRLRLFSGSSNPALAQEV----ARYLGM 43 (330)
T ss_pred CCcccccccCCCCccccCCCCEEEEECCCCHHHHHHH----HHHhCC
Confidence 799999999999998777544 6788999865 555554
No 129
>PF07315 DUF1462: Protein of unknown function (DUF1462); InterPro: IPR009190 There are currently no experimental data for members of this group of bacterial proteins or their homologues. A crystal structure of Q7A6J8 from SWISSPROT revealed a thioredoxin-like fold, its core consisting of three layers alpha/beta/alpha.; PDB: 1XG8_A.
Probab=20.85 E-value=61 Score=21.36 Aligned_cols=26 Identities=15% Similarity=0.245 Sum_probs=17.0
Q ss_pred EEEEEeCCccCCCCCCHHHHHHHHHH
Q psy2758 34 ADVWYLPPMFQGQGENAVEFASRVKR 59 (72)
Q Consensus 34 ~dV~yLpp~~r~~~E~~~eFA~RVk~ 59 (72)
+++.|..=....+++...+||+|++.
T Consensus 38 f~~~YiDi~~p~~~~~~~~~a~~I~e 63 (93)
T PF07315_consen 38 FEFTYIDIENPPENDHDQQFAERILE 63 (93)
T ss_dssp EEEEEEETTT----HHHHHHHHHHHT
T ss_pred eEEEEEecCCCCccHHHHHHHHHHHh
Confidence 56777776777667778899999864
No 130
>cd04664 Nudix_Hydrolase_7 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=20.71 E-value=1.2e+02 Score=18.65 Aligned_cols=31 Identities=26% Similarity=0.343 Sum_probs=23.3
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
+.|.+|-=....+|++.+=|. .++-+++||.
T Consensus 28 ~~w~~PgG~ve~~Es~~~aa~---RE~~EE~Gl~ 58 (129)
T cd04664 28 GFWQSVTGGIEDGESPAEAAR---REVAEETGLD 58 (129)
T ss_pred CcccccCcccCCCCCHHHHHH---HHHHHHHCCC
Confidence 467788888899999876555 5666777775
No 131
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=20.50 E-value=1.3e+02 Score=18.66 Aligned_cols=19 Identities=21% Similarity=0.379 Sum_probs=16.2
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q psy2758 45 GQGENAVEFASRVKRAISK 63 (72)
Q Consensus 45 ~~~E~~~eFA~RVk~~IA~ 63 (72)
.++++..+|.+++++.|.+
T Consensus 35 ~~~~~~~~~~~~l~~~i~~ 53 (116)
T PF03610_consen 35 YPDESIEDFEEKLEEAIEE 53 (116)
T ss_dssp TTTSCHHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHHHHHHh
Confidence 4578999999999999954
No 132
>cd03586 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa. Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a
Probab=20.45 E-value=1.5e+02 Score=21.42 Aligned_cols=34 Identities=26% Similarity=0.244 Sum_probs=24.6
Q ss_pred EEEEeCCccC-CCCCCHHHHHHHHHHHHHhhCCCc
Q psy2758 35 DVWYLPPMFQ-GQGENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 35 dV~yLpp~~r-~~~E~~~eFA~RVk~~IA~~~gl~ 68 (72)
|--||+.-.- ....++.++|+++++.|.++.|+.
T Consensus 98 De~~ldv~~~~~~~~~~~~la~~ir~~i~~~~g~~ 132 (334)
T cd03586 98 DEAYLDVTDYVRLFGSATEIAKEIRARIREETGLT 132 (334)
T ss_pred cceeEccccccccCCCHHHHHHHHHHHHHHHHCCc
Confidence 3445554432 345688999999999999988874
No 133
>PF00817 IMS: impB/mucB/samB family; InterPro: IPR001126 In Escherichia coli, UV and many chemicals appear to cause mutagenesis by a process of translesion synthesis that requires DNA polymerase III and the SOS-regulated proteins UmuD, UmuC and RecA. This machinery allows the replication to continue through DNA lesion, and therefore avoid lethal interruption of DNA replication after DNA damage []. UmuC is a well conserved protein in prokaryotes, with a homologue in yeast species. Proteins currently known to belong to this family are listed below: E. coli MucB protein. Plasmid-born analogue of the UmuC protein. Saccharomyces cerevisiae (Baker's yeast) Rev1 protein. Homologue of UmuC also required for normal induction of mutations by physical and chemical agents. Salmonella typhimurium ImpB protein. Plasmid-born analogue of the UmuC protein. Bacterial UmuC protein. E. coli DNA-damage-inducible protein P (DinP). S. typhimurium SamB homologue of UmuC plasmid associated. ; GO: 0003684 damaged DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006281 DNA repair; PDB: 3BJY_A 2AQ4_A 3OSP_A 4DL7_A 4DL6_A 3TQ1_A 3MR2_A 4EEY_A 3MR3_A 4DL4_A ....
Probab=20.42 E-value=92 Score=20.19 Aligned_cols=21 Identities=29% Similarity=0.517 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHHHHHhhCCCc
Q psy2758 48 ENAVEFASRVKRAISKQGGLV 68 (72)
Q Consensus 48 E~~~eFA~RVk~~IA~~~gl~ 68 (72)
++..+++.++++.|.+++|+.
T Consensus 112 ~~~~~~~~~l~~~i~~~~gl~ 132 (149)
T PF00817_consen 112 GGEEALARRLRQAIAEETGLT 132 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHS--
T ss_pred chHHHHHHHHHHHHHHHhCCE
Confidence 345789999999999999875
No 134
>cd04691 Nudix_Hydrolase_32 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=20.29 E-value=1.6e+02 Score=18.10 Aligned_cols=32 Identities=19% Similarity=0.178 Sum_probs=24.5
Q ss_pred EEEEeCCccCCCCCCHHHHHHHHHHHHHhhCCCcc
Q psy2758 35 DVWYLPPMFQGQGENAVEFASRVKRAISKQGGLVD 69 (72)
Q Consensus 35 dV~yLpp~~r~~~E~~~eFA~RVk~~IA~~~gl~~ 69 (72)
+.|-||-=..+++|++.+=|. .++.++.|+..
T Consensus 27 g~w~lPgG~ve~gE~~~~aa~---REl~EEtGl~~ 58 (117)
T cd04691 27 GKLNIPGGHIEAGESQEEALL---REVQEELGVDP 58 (117)
T ss_pred CeEECcceeecCCCCHHHHHH---HHHHHHHCCCc
Confidence 457788888899999887666 57778888763
No 135
>PRK09697 protein secretion protein GspB; Provisional
Probab=20.14 E-value=94 Score=21.62 Aligned_cols=18 Identities=22% Similarity=0.466 Sum_probs=13.5
Q ss_pred CCCCHHHHHHHHHHHHHh
Q psy2758 46 QGENAVEFASRVKRAISK 63 (72)
Q Consensus 46 ~~E~~~eFA~RVk~~IA~ 63 (72)
|+++..+.-+|||.++++
T Consensus 119 E~D~~A~Lr~RVK~A~~E 136 (139)
T PRK09697 119 ESDEKAGLRERVKNALNE 136 (139)
T ss_pred ccccchHHHHHHHHHHHH
Confidence 344456789999999985
No 136
>PF00679 EFG_C: Elongation factor G C-terminus; InterPro: IPR000640 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF2 (EF-G) is a G-protein. It brings about the translocation of peptidyl-tRNA and mRNA through a ratchet-like mechanism: the binding of GTP-EF2 to the ribosome causes a counter-clockwise rotation in the small ribosomal subunit; the hydrolysis of GTP to GDP by EF2 and the subsequent release of EF2 causes a clockwise rotation of the small subunit back to the starting position [, ]. This twisting action destabilises tRNA-ribosome interactions, freeing the tRNA to translocate along the ribosome upon GTP-hydrolysis by EF2. EF2 binding also affects the entry and exit channel openings for the mRNA, widening it when bound to enable the mRNA to translocate along the ribosome. This entry represents the C-terminal domain found in EF2 (or EF-G) of both prokaryotes and eukaryotes (also known as eEF2), as well as in some tetracycline-resistance proteins. This domain adopts a ferredoxin-like fold consisting of an alpha/beta sandwich with anti-parallel beta-sheets. It resembles the topology of domain III found in these elongation factors, with which it forms the C-terminal block, but these two domains cannot be superimposed []. This domain is often found associated with (IPR000795 from INTERPRO), which contains the signatures for the N terminus of the proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1WDT_A 2DY1_A 3CB4_F 3DEG_C 2EFG_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y ....
Probab=20.13 E-value=14 Score=22.42 Aligned_cols=29 Identities=24% Similarity=0.342 Sum_probs=22.8
Q ss_pred eCCccCCCCCCHHHHHHHHHHHHHhhCCC
Q psy2758 39 LPPMFQGQGENAVEFASRVKRAISKQGGL 67 (72)
Q Consensus 39 Lpp~~r~~~E~~~eFA~RVk~~IA~~~gl 67 (72)
|+|+.+-+=+.|.++..+|-+.|+++.|.
T Consensus 3 lEP~~~~~I~~p~~~~g~v~~~l~~r~g~ 31 (89)
T PF00679_consen 3 LEPIMSVEISVPEEYLGKVISDLSKRRGE 31 (89)
T ss_dssp EEEEEEEEEEEEGGGHHHHHHHHHHTT-E
T ss_pred ECCEEEEEEEECHHHHHHHHHHhcccccE
Confidence 56776666777889999999999998774
No 137
>PF01559 Zein: Zein seed storage protein; InterPro: IPR002530 Alpha-prolamins are the major seed storage proteins of species of the grass tribe Andropogonea. They are unusually rich in glutamine, proline, alanine, and leucine residues and their sequences show a series of tandem repeats presumed to be the result of multiple intragenic duplication []. In Zea mays (Maize), the 22 kDa and 19 kDa zeins are encoded by a large multigene family and are the major seed storage proteins accounting for 70% of the total zein fraction. Structurally the 22 kDa and 19 kDa zeins are composed of nine adjacent, topologically antiparallel helices clustered within a distorted cylinder. The 22 kDa alpha-zeins are encoded by 23 genes []; twenty-two of the members are found in a roughly tandem array forming a dense gene cluster. The expressed genes in the cluster are interspersed with nonexpressed genes. Interestingly, some of the expressed genes differ in their transcriptional regulation. Gene amplification appears to be in blocks of genes explaining the rapid and compact expansion of the cluster during the evolution of maize.; GO: 0045735 nutrient reservoir activity
Probab=20.10 E-value=87 Score=23.83 Aligned_cols=28 Identities=25% Similarity=0.394 Sum_probs=25.7
Q ss_pred EEeCCccCCCCCCHHHHHHHHHHHHHhh
Q psy2758 37 WYLPPMFQGQGENAVEFASRVKRAISKQ 64 (72)
Q Consensus 37 ~yLpp~~r~~~E~~~eFA~RVk~~IA~~ 64 (72)
-||||++-.--|.|+-=+-|.+.+||..
T Consensus 15 q~lp~vta~~~EhP~vQ~YrLqQalaas 42 (246)
T PF01559_consen 15 QFLPPVTASGYEHPAVQAYRLQQALAAS 42 (246)
T ss_pred ccccchhhhhccchhHHHHHHHHHHHHH
Confidence 5899999999999999999999999864
Done!