Query 030761
Match_columns 172
No_of_seqs 141 out of 1051
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 04:10:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030761.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030761hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02998 RraA_entero regulato 100.0 2.7E-53 5.8E-58 331.0 17.7 158 4-171 2-159 (161)
2 PRK09372 ribonuclease activity 100.0 4.3E-51 9.4E-56 318.4 17.3 158 4-171 2-159 (159)
3 PRK12487 ribonuclease activity 100.0 5.9E-51 1.3E-55 318.4 17.6 158 4-171 2-159 (163)
4 PRK06201 hypothetical protein; 100.0 4.1E-50 8.8E-55 327.9 16.1 160 1-171 21-181 (221)
5 TIGR01935 NOT-MenG RraA famliy 100.0 8.8E-50 1.9E-54 308.4 16.7 150 7-166 1-150 (150)
6 PRK09262 hypothetical protein; 100.0 1E-49 2.3E-54 326.2 16.5 160 1-171 19-179 (225)
7 TIGR02798 ligK_PcmE 4-carboxy- 100.0 9.5E-50 2.1E-54 325.7 16.1 160 1-171 17-177 (222)
8 COG0684 MenG Demethylmenaquino 100.0 6.6E-49 1.4E-53 316.9 13.7 160 7-171 13-172 (210)
9 PF03737 Methyltransf_6: Demet 100.0 4.5E-48 9.8E-53 300.2 16.2 152 4-165 2-154 (154)
10 PRK08245 hypothetical protein; 100.0 4.4E-48 9.6E-53 319.3 14.9 162 1-171 13-190 (240)
11 PRK07028 bifunctional hexulose 100.0 2.9E-45 6.4E-50 323.6 15.3 158 1-171 232-390 (430)
12 PRK12764 hypothetical protein; 100.0 2.5E-44 5.4E-49 323.1 15.6 162 1-171 274-448 (500)
13 PRK13016 dihydroxy-acid dehydr 62.3 27 0.00059 32.8 6.7 63 37-102 403-475 (577)
14 PRK12448 dihydroxy-acid dehydr 61.1 28 0.00061 32.9 6.6 64 37-103 445-515 (615)
15 COG3010 NanE Putative N-acetyl 52.8 18 0.00039 29.8 3.4 41 77-118 30-71 (229)
16 PF02225 PA: PA domain; Inter 51.3 33 0.00072 23.3 4.3 37 60-101 29-65 (101)
17 cd04814 PA_M28_1 PA_M28_1: Pro 49.7 34 0.00074 26.2 4.4 43 62-104 45-100 (142)
18 KOG0025 Zn2+-binding dehydroge 48.5 9.6 0.00021 33.2 1.3 60 56-123 153-212 (354)
19 PRK00911 dihydroxy-acid dehydr 48.3 58 0.0013 30.5 6.4 61 39-102 397-464 (552)
20 TIGR00110 ilvD dihydroxy-acid 45.0 59 0.0013 30.3 5.9 64 37-103 380-450 (535)
21 PRK08296 hypothetical protein; 44.8 47 0.001 31.4 5.3 92 37-166 508-601 (603)
22 cd02126 PA_EDEM3_like PA_EDEM3 44.8 45 0.00098 24.5 4.3 32 64-100 40-71 (126)
23 PRK06131 dihydroxy-acid dehydr 44.2 71 0.0015 30.0 6.3 63 37-102 398-470 (571)
24 PRK13017 dihydroxy-acid dehydr 43.4 83 0.0018 29.8 6.6 62 38-102 420-491 (596)
25 PF00920 ILVD_EDD: Dehydratase 42.6 21 0.00045 33.1 2.6 64 37-103 369-439 (521)
26 cd02121 PA_GCPII_like PA_GCPII 42.3 1E+02 0.0022 25.4 6.3 76 26-106 32-108 (220)
27 PRK08211 putative dehydratase; 42.3 65 0.0014 30.8 5.8 62 38-103 468-536 (655)
28 cd04820 PA_M28_1_1 PA_M28_1_1: 40.4 61 0.0013 24.6 4.5 83 37-119 20-117 (137)
29 cd02128 PA_TfR PA_TfR: Proteas 40.2 1.1E+02 0.0025 24.4 6.2 65 29-100 19-86 (183)
30 PRK09054 phosphogluconate dehy 39.8 76 0.0016 30.1 5.8 53 50-103 452-512 (603)
31 TIGR03432 yjhG_yagF probable d 38.6 77 0.0017 30.2 5.7 61 38-102 462-529 (640)
32 PF14685 Tricorn_PDZ: Tricorn 36.2 22 0.00048 25.0 1.4 18 147-165 37-54 (88)
33 cd04822 PA_M28_1_3 PA_M28_1_3: 36.2 71 0.0015 24.6 4.3 69 38-106 19-102 (151)
34 PF04131 NanE: Putative N-acet 33.7 41 0.00088 27.2 2.7 35 84-119 3-38 (192)
35 cd00538 PA PA: Protease-associ 32.0 99 0.0021 21.7 4.3 32 63-99 45-76 (126)
36 KOG2666 UDP-glucose/GDP-mannos 31.7 37 0.00079 30.1 2.2 36 88-123 434-470 (481)
37 cd04816 PA_SaNapH_like PA_SaNa 31.4 94 0.002 22.4 4.2 32 64-100 43-74 (122)
38 cd02130 PA_ScAPY_like PA_ScAPY 31.1 1E+02 0.0022 22.2 4.3 33 63-100 43-75 (122)
39 cd04821 PA_M28_1_2 PA_M28_1_2: 31.0 1E+02 0.0022 23.9 4.5 37 63-99 48-98 (157)
40 cd02135 Arsenite_oxidase Nitro 30.6 41 0.00088 24.8 2.2 39 77-115 108-147 (160)
41 PF04199 Cyclase: Putative cyc 30.6 78 0.0017 24.1 3.8 67 37-103 75-166 (171)
42 PF03483 B3_4: B3/4 domain; I 30.4 55 0.0012 25.4 2.9 21 147-167 83-103 (174)
43 cd02132 PA_GO-like PA_GO-like: 29.9 1.1E+02 0.0023 22.9 4.3 33 63-100 58-90 (139)
44 COG0256 RplR Ribosomal protein 29.8 27 0.00059 26.3 1.0 24 77-100 78-101 (125)
45 cd04817 PA_VapT_like PA_VapT_l 29.8 1.3E+02 0.0029 22.8 4.8 37 63-100 55-92 (139)
46 COG4297 Uncharacterized protei 29.5 84 0.0018 24.4 3.6 27 131-157 70-96 (163)
47 cd03422 YedF YedF is a bacteri 28.8 1.4E+02 0.003 19.5 4.3 40 54-97 15-54 (69)
48 cd06291 PBP1_Qymf_like Ligand 28.2 1.1E+02 0.0024 24.0 4.4 37 87-123 49-85 (265)
49 cd04818 PA_subtilisin_1 PA_sub 28.0 1.3E+02 0.0028 21.4 4.4 33 63-100 39-71 (118)
50 TIGR01196 edd 6-phosphoglucona 26.7 1.5E+02 0.0033 28.1 5.5 62 38-103 442-511 (601)
51 PRK05849 hypothetical protein; 26.5 5.2E+02 0.011 25.4 9.3 90 36-166 688-782 (783)
52 cd02127 PA_hPAP21_like PA_hPAP 25.6 1.4E+02 0.0029 21.8 4.2 32 64-100 34-65 (118)
53 TIGR01740 pyrF orotidine 5'-ph 24.9 3.3E+02 0.0072 21.6 6.6 81 42-125 78-170 (213)
54 cd02129 PA_hSPPL_like PA_hSPPL 24.8 1.5E+02 0.0032 22.0 4.2 33 63-100 43-75 (120)
55 cd04819 PA_2 PA_2: Protease-as 24.5 1.4E+02 0.0031 21.7 4.1 36 63-101 43-78 (127)
56 PRK14529 adenylate kinase; Pro 24.1 81 0.0017 25.8 2.9 33 80-112 63-95 (223)
57 cd04813 PA_1 PA_1: Protease-as 23.1 1.6E+02 0.0034 21.5 4.1 32 64-100 39-70 (117)
58 cd02123 PA_C_RZF_like PA_C-RZF 23.1 1.5E+02 0.0033 22.5 4.1 34 62-100 65-98 (153)
59 cd02133 PA_C5a_like PA_C5a_lik 22.7 1.6E+02 0.0036 21.7 4.2 32 63-99 46-77 (143)
60 cd00571 UreE UreE urease acces 22.4 85 0.0018 23.5 2.6 33 133-167 40-72 (136)
61 cd04723 HisA_HisF Phosphoribos 22.2 4E+02 0.0086 21.5 6.7 61 51-112 36-96 (233)
62 cd02124 PA_PoS1_like PA_PoS1_l 22.0 1.6E+02 0.0035 21.8 4.0 32 64-100 55-86 (129)
63 cd02120 PA_subtilisin_like PA_ 21.9 1.7E+02 0.0036 20.8 4.0 33 63-99 50-82 (126)
64 PF10447 EXOSC1: Exosome compo 21.9 53 0.0012 22.8 1.3 10 149-158 68-77 (82)
65 cd02131 PA_hNAALADL2_like PA_h 21.7 3.6E+02 0.0079 21.0 6.0 66 28-100 4-71 (153)
66 PRK00748 1-(5-phosphoribosyl)- 21.5 3.5E+02 0.0077 21.3 6.2 19 86-104 152-170 (233)
67 PF08194 DIM: DIM protein; In 21.5 46 0.001 19.7 0.7 12 94-105 23-34 (36)
68 TIGR03553 F420_FbiB_CTERM F420 21.2 98 0.0021 23.8 2.8 38 78-115 123-161 (194)
69 PRK02083 imidazole glycerol ph 21.0 4.5E+02 0.0098 21.3 7.1 61 51-112 31-92 (253)
70 PRK14112 urease accessory prot 21.0 94 0.002 24.0 2.6 32 134-167 43-74 (149)
71 TIGR01828 pyru_phos_dikin pyru 21.0 7.2E+02 0.016 24.7 9.1 104 37-167 397-504 (856)
72 PRK10765 nitroreductase A; Pro 20.9 90 0.0019 25.5 2.6 39 77-115 107-146 (240)
73 COG3365 Uncharacterized protei 20.8 1E+02 0.0023 22.7 2.6 22 54-75 22-43 (118)
74 KOG3079 Uridylate kinase/adeny 20.3 1.4E+02 0.0031 24.1 3.6 32 81-112 73-105 (195)
75 PF11811 DUF3331: Domain of un 20.2 1.3E+02 0.0028 21.7 2.9 33 111-158 40-72 (96)
No 1
>TIGR02998 RraA_entero regulator of ribonuclease activity A. THIS PROTEIN IS _NOT_ MenG, AKA S-adenosylmethionine: 2-demethylmenaquinone methyltransferase (EC 2.1.-.-). See the references characterizing this as a case of transitive annotation error .
Probab=100.00 E-value=2.7e-53 Score=331.00 Aligned_cols=158 Identities=45% Similarity=0.775 Sum_probs=152.6
Q ss_pred CCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehH
Q 030761 4 VVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGG 83 (172)
Q Consensus 4 ~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~ 83 (172)
++.|++|||++.+ .++.++|.|++||+.+|++|+|+||++.+||..+++++++++||||||||++++.++|+|||
T Consensus 2 ~~~t~dl~d~~~~-----~~~~~~~~~~~~g~~~~~~G~A~TV~~~~d~~~~~~aid~~~pGdVlVid~~g~~~~A~~G~ 76 (161)
T TIGR02998 2 QYDTSELCDFYAD-----LVDVVEPIFSNFGGRSSFGGKVVTVKCFEHNGLINELLEQNGTGRVLVIDGGGSTRRALIDA 76 (161)
T ss_pred CCCchhHhhcCcc-----cccEecccccccCCCCEEEEEEEEEEeeCCcHHHHHHHhccCCCeEEEEECCCCCceEeeCH
Confidence 4799999999987 57899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcCCce
Q 030761 84 NLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADSDGI 163 (172)
Q Consensus 84 l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~dGV 163 (172)
+|+++|++||++|+|+||++||++||++++|||||+|++|..+.+...+++|+||+|| |++|+|||+|+||+|||
T Consensus 77 ~la~~a~~~G~aGvVidG~vRD~~~i~~l~~PVfa~g~~p~~~~~~~~g~~nvpV~ig-----gv~V~PGD~IvaD~DGV 151 (161)
T TIGR02998 77 ELAQLAANNGWEGIVVYGAVRQVDALEELDIGIQALAAIPVGADEQGIGESDIAVNFA-----GVTFFPDDYIYADNTGI 151 (161)
T ss_pred HHHHHHHHCCCeEEEEeecccCHHHHhhCCCCcEEeeccCCCCCCCCcceeCCCEEEC-----CEEECCCCEEEEcCCcE
Confidence 9999999999999999999999999999999999999999988777899999999999 99999999999999999
Q ss_pred EEecCCcC
Q 030761 164 LVSKSELS 171 (172)
Q Consensus 164 vviP~~l~ 171 (172)
+|||++|.
T Consensus 152 vVip~~~~ 159 (161)
T TIGR02998 152 ILSPEPLE 159 (161)
T ss_pred EEECcccc
Confidence 99999984
No 2
>PRK09372 ribonuclease activity regulator protein RraA; Provisional
Probab=100.00 E-value=4.3e-51 Score=318.43 Aligned_cols=158 Identities=53% Similarity=0.943 Sum_probs=149.0
Q ss_pred CCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehH
Q 030761 4 VVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGG 83 (172)
Q Consensus 4 ~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~ 83 (172)
++.|++|||++.. .++.+.|.++++++++|++|+|+||++.+|+...++++++++|||||||++.++.++|+|||
T Consensus 2 ~~~ta~l~D~~~~-----~~~~~~~~i~~~~~~~~~~G~A~TV~~~~d~~~~~~~i~~~~~GdVlVid~~g~~~~a~~G~ 76 (159)
T PRK09372 2 EYDTSDLCDIYPD-----DVRVVEPLFSSFGGRSSFGGPITTVKCFEDNGLVKELLEEPGEGRVLVVDGGGSLRRALVGD 76 (159)
T ss_pred CCCcceeeccccC-----cccCcCccccccCCCCEEEEEEEEEEEeCCcHHHHHHHhcCCCCeEEEEECCCCcCcEeehH
Confidence 6899999999864 34567888888888899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcCCce
Q 030761 84 NLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADSDGI 163 (172)
Q Consensus 84 l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~dGV 163 (172)
+|+++|+++|++|+|+||++||++||++++|||||+|++|..+.+...+++|+||+|+ |++|+|||+|+||.|||
T Consensus 77 ~~~~~a~~~G~~G~VidG~vRD~~~i~~~~~Pvfa~g~~p~~~~~~~~~~~n~pV~ig-----gv~V~PGD~I~aD~dGV 151 (159)
T PRK09372 77 NLAELAVDNGWEGIVVYGCVRDVDELAELDIGIQALAAIPVKSDKEGIGERDVPVNFG-----GVTFFPGDYLYADNDGI 151 (159)
T ss_pred HHHHHHHHcCCeEEEecccccCHHHHhhCCCCeEEeeecCCCCCCCCccEecccEEEC-----CEEECCCCEEEEcCCCE
Confidence 9999999999999999999999999999999999999999888777899999999999 99999999999999999
Q ss_pred EEecCCcC
Q 030761 164 LVSKSELS 171 (172)
Q Consensus 164 vviP~~l~ 171 (172)
+|||++|.
T Consensus 152 vviP~~l~ 159 (159)
T PRK09372 152 IVSPEPLD 159 (159)
T ss_pred EEECCcCC
Confidence 99999973
No 3
>PRK12487 ribonuclease activity regulator protein RraA; Reviewed
Probab=100.00 E-value=5.9e-51 Score=318.39 Aligned_cols=158 Identities=44% Similarity=0.786 Sum_probs=150.6
Q ss_pred CCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehH
Q 030761 4 VVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGG 83 (172)
Q Consensus 4 ~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~ 83 (172)
.+.|++|||.+.. .++.+.|.++++++.++++|+|+||++.+++..+++++++++||||||||++++.++|+|||
T Consensus 2 ~~~~~dl~d~~~~-----~~~~l~~~i~~~~~~~~~~G~A~TV~~~~d~~~~~~al~~~~~GdVlVid~~g~~~~a~~G~ 76 (163)
T PRK12487 2 LDLLPDLFDHYED-----KLTLLNLPFKNFGGKRIFWGEIVTVRCFEDNSKVKEVLAQDGKGKVLVVDGGGSCRRALLGD 76 (163)
T ss_pred CCCchhHhhcchh-----hhcccCHhheecCCCCEEEEEEEEEEeeCCcHHHHHHHhcCCCCeEEEEECCCCCCcEeehH
Confidence 4689999999987 57889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcCCce
Q 030761 84 NLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADSDGI 163 (172)
Q Consensus 84 l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~dGV 163 (172)
+|+++|++||++|+|+||++||+++|++++|||||+|++|.++.+...+++|+||+|+ |++|+|||+|+||+|||
T Consensus 77 ~~a~~a~~~G~aG~VidG~vRD~~~i~~l~fPVfa~g~~p~~~~~~~~~~~nvPV~ig-----gv~V~PGDiI~aD~dGV 151 (163)
T PRK12487 77 QIAQSALDNGWEGIVINGCVRDVGALSTMDLGVKALGASPIKTEKRGQGEVNVTLTMG-----NVIIEPGDMLYADENGI 151 (163)
T ss_pred HHHHHHHHCCCeEEEEeecccCHHHHhhCCCCeEEeecCCCCCCCCCcceecccEEEC-----CEEECCCCEEEEcCCCE
Confidence 9999999999999999999999999999999999999999887777899999999999 99999999999999999
Q ss_pred EEecCCcC
Q 030761 164 LVSKSELS 171 (172)
Q Consensus 164 vviP~~l~ 171 (172)
+|||++|.
T Consensus 152 vvip~~l~ 159 (163)
T PRK12487 152 AVSKEALD 159 (163)
T ss_pred EEECchhh
Confidence 99999874
No 4
>PRK06201 hypothetical protein; Validated
Probab=100.00 E-value=4.1e-50 Score=327.88 Aligned_cols=160 Identities=28% Similarity=0.453 Sum_probs=146.2
Q ss_pred CCCCCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeec-CcHHHHHHHhhCCCCcEEEEEcCCCCCcc
Q 030761 1 MAGVVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFE-DNVLVRELLETRGEGKVLVIDGGGSMRCA 79 (172)
Q Consensus 1 ~l~~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~~~~~~~G~VlVid~~g~~~~a 79 (172)
+|++++|++|||+|++++. +.+.++++.+.++++|+|+|+++.+ |+...+++++.++||+|||||+.++.++|
T Consensus 21 ~l~~l~t~~v~Dal~~~g~------~~~~i~p~~~~~~~~G~A~Tv~~~~~d~~~~~~ai~~~~pG~VlVid~~g~~~~a 94 (221)
T PRK06201 21 AFRELPVANISDSMNRMTA------GGAGLRPMHRGGRLAGTALTVRTRPGDNLMIHRALDLARPGDVIVVDGGGDLTNA 94 (221)
T ss_pred HHhcCCchHHHHHHcccCC------CcccceecCCCCEEEEEEEEEEeeCCCcHHHHHHHhccCCCcEEEEECCCCCCcc
Confidence 5789999999999998653 2233445555689999999999997 78889999999999999999999999999
Q ss_pred eehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEc
Q 030761 80 LVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYAD 159 (172)
Q Consensus 80 ~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD 159 (172)
+|||+++++|+++|++|+|+||++||+++|++++|||||+|++|.++.+...+++|+||+|| |++|+|||+|+||
T Consensus 95 ~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~fPvfa~g~~p~~~~~~~~~~~n~pV~ig-----Gv~V~PGD~I~aD 169 (221)
T PRK06201 95 LVGEIMLAIAARRGVAGVVIDGAVRDVAALREMGFPVFARGVTHRGPYKDGPGEINVPVAIG-----GMVIEPGDLIVGD 169 (221)
T ss_pred chhHHHHHHHHHCCCeEEEEeeccCCHHHHhhCCCCeEEeccCCCCCCCCCccccCccEEEC-----CEEEcCCCEEEEc
Confidence 99999999999999999999999999999999999999999999877667789999999999 9999999999999
Q ss_pred CCceEEecCCcC
Q 030761 160 SDGILVSKSELS 171 (172)
Q Consensus 160 ~dGVvviP~~l~ 171 (172)
+|||+|||++++
T Consensus 170 ~dGVvviP~~~a 181 (221)
T PRK06201 170 DDGLVAVPPADA 181 (221)
T ss_pred CCceEEEcHHHH
Confidence 999999999864
No 5
>TIGR01935 NOT-MenG RraA famliy. This model was initially classified as a "hypothetical equivalog" expressing the tentative hypothesis that all members might have the same function as the E. coli enzyme. Considering the second clade of enterobacterial sequences within this family, that appears to be less tenable. The function of these sequences outside of the narrow RraA equivalog model (TIGR02998) remains obscure. All of these were initially annotated as MenG, AKA S-adenosylmethionine: 2-demethylmenaquinone methyltransferase (EC 2.1.-.-). See the references characterizing this as a case of transitive annotation error in the case of the E. coli protein.
Probab=100.00 E-value=8.8e-50 Score=308.37 Aligned_cols=150 Identities=55% Similarity=1.042 Sum_probs=144.4
Q ss_pred hhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHH
Q 030761 7 TAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLG 86 (172)
Q Consensus 7 t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a 86 (172)
|++|||.+.+ .++.++|.|++|++.+|++|+|+||++.+|+..+++++++++|||||||+++++.+.|+|||+|+
T Consensus 1 t~~l~d~~~~-----~~~~~~~~~~~~g~~~~i~G~A~TV~~~~d~~~~~~ai~~~~~GdVlVid~~g~~~~a~~G~~~~ 75 (150)
T TIGR01935 1 TPDLCDAYPD-----KVRVLEPMFRNFGGRAAFAGPIVTVKCFEDNSLVREVLEQPGAGRVLVVDGGGSLRCALLGDNLA 75 (150)
T ss_pred CchHHhCCcc-----hhcccChhhhhcCCCCEEEEEEEEEEEECCcHHHHHHHhcCCCCeEEEEECCCCCceEeehHHHH
Confidence 7899999976 57889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcCCceEEe
Q 030761 87 QLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADSDGILVS 166 (172)
Q Consensus 87 ~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~dGVvvi 166 (172)
++|+++|++|+|+||++||++||++++|||||+|++|..+.+...+++|+||+|+ |++|+|||+|+||.|||+|.
T Consensus 76 ~~a~~~G~~G~VidG~vRD~~~i~~~~~Pvfa~g~~p~~~~~~~~~~~nvPV~ig-----Gv~V~PGD~IvaD~dGVvv~ 150 (150)
T TIGR01935 76 VLAEENGWEGVIVNGCVRDVAELAGMDLGVKALAAHPRKTEKRGAGEVDVPVTFA-----GVTFVPGDYLYADEDGILVS 150 (150)
T ss_pred HHHHHCCCEEEEEeecccCHHHHhhCCCCEEEeeecCCCCCCCcceEecceEEEC-----CEEECCCCEEEEcCCCEEEC
Confidence 9999999999999999999999999999999999999988777899999999999 99999999999999999984
No 6
>PRK09262 hypothetical protein; Provisional
Probab=100.00 E-value=1e-49 Score=326.16 Aligned_cols=160 Identities=24% Similarity=0.332 Sum_probs=146.7
Q ss_pred CCCCCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeec-CcHHHHHHHhhCCCCcEEEEEcCCCCCcc
Q 030761 1 MAGVVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFE-DNVLVRELLETRGEGKVLVIDGGGSMRCA 79 (172)
Q Consensus 1 ~l~~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~~~~~~~G~VlVid~~g~~~~a 79 (172)
+|++++|++|||+|++++. +.+.++++.++++++|+|+||++.+ |++.++++++.++||+||||++.++.++|
T Consensus 19 ~l~~~~ta~v~Dal~~~g~------~~~~i~p~~~~~~~~G~A~TV~~~~~d~~~~~~ai~~~~pGdVlVid~~g~~~~a 92 (225)
T PRK09262 19 RLAEFGVATVHEAQGRVGL------LKPYMRPIYQGARIAGTAVTVLVQPGDNWMMHVAVEQCQPGDVLVVAPTSPCTDG 92 (225)
T ss_pred HhcCCCCccHHHHhcccCC------CCcceEECCCCCeEEEEEEEEEeecCCcHHHHHHHHccCCCCEEEEECCCCCcee
Confidence 5889999999999998653 3334555556679999999999995 88999999999999999999999999999
Q ss_pred eehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEc
Q 030761 80 LVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYAD 159 (172)
Q Consensus 80 ~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD 159 (172)
+|||+|+++|+++|++|+|+||++||+++|++++|||||+|++|.++.+...+++|+||+|| |++|+|||+||||
T Consensus 93 ~~Ge~~a~~a~~~G~~GiVidG~vRD~~~i~~l~~Pvfa~g~~p~~~~~~~~~~~nvpV~ig-----gv~V~PGD~IvaD 167 (225)
T PRK09262 93 FFGDLLATSLQARGVRGLVIDAGVRDVRTLTEMGFPVWSRAISAQGTVKATLGSVNVPVVCA-----GALVNPGDVVVAD 167 (225)
T ss_pred eehHHHHHHHHHCCCeEEEEeceeCCHHHHhhCCCceEEeecCCCCCCCCCcceecccEEEC-----CEEECCCCEEEEE
Confidence 99999999999999999999999999999999999999999999877777799999999999 9999999999999
Q ss_pred CCceEEecCCcC
Q 030761 160 SDGILVSKSELS 171 (172)
Q Consensus 160 ~dGVvviP~~l~ 171 (172)
+|||+|||++++
T Consensus 168 ~dGVvvIP~~~~ 179 (225)
T PRK09262 168 DDGVVVVPRAQA 179 (225)
T ss_pred CCcEEEECHHHH
Confidence 999999999763
No 7
>TIGR02798 ligK_PcmE 4-carboxy-4-hydroxy-2-oxoadipate aldolase/oxaloacetate decarboxylase. Members of this protein family 4-carboxy-4-hydroxy-2-oxoadipate aldolase, also called 4-oxalocitramalate aldolase. This enzyme of the protocatechuate 4,5-cleavage pathway converts its substrate to pyruvate plus oxaloacetate. Protocatechuate is an intermediate in many pathways for degrading aromatic compounds, including lignin, fluorene, etc. Hara, et al. showed the LigK gene was not only a 4-carboxy-4-hydroxy-2-oxoadipate aldolase but also the enzyme of the following step, oxaloacetate decarboxylase.
Probab=100.00 E-value=9.5e-50 Score=325.66 Aligned_cols=160 Identities=21% Similarity=0.284 Sum_probs=147.0
Q ss_pred CCCCCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeec-CcHHHHHHHhhCCCCcEEEEEcCCCCCcc
Q 030761 1 MAGVVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFE-DNVLVRELLETRGEGKVLVIDGGGSMRCA 79 (172)
Q Consensus 1 ~l~~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~~~~~~~G~VlVid~~g~~~~a 79 (172)
+|+.++|++|||+|++++. +.+.++++.+++|++|+|+||++.+ ||..++++++.++||||||||+.++.++|
T Consensus 17 ~l~~~~ta~v~Dal~~~g~------~~~~I~p~~~~~ki~G~A~TV~~~~~d~~~~~~ai~~~~pGdVlVid~~g~~~~a 90 (222)
T TIGR02798 17 GLAAFGVATVHEAMGRVGL------LAPYMRPIYTGARVCGTAVTVLLQPGDNWMMHVAAEQIQEGDVVVAACTAECEDG 90 (222)
T ss_pred HHhCCCCccHHHHhcccCC------CCccceEcCCCCEEEEEEEEEEeecCCchHHHHHHHhCCCCeEEEEECCCCcceE
Confidence 4789999999999998763 3334555556789999999999995 88999999999999999999999999999
Q ss_pred eehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEc
Q 030761 80 LVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYAD 159 (172)
Q Consensus 80 ~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD 159 (172)
+|||+|+++|+++|++|+|+||++||+++|++++|||||+|++|.++.+...+++|+||+|| |++|+|||+|+||
T Consensus 91 ~~G~~~a~~a~~~G~~GiVidG~vRD~~~i~~l~~Pvfa~g~~p~~~~~~~~~~~nvpv~ig-----gv~V~PGD~i~aD 165 (222)
T TIGR02798 91 YFGDLLATSFQARGCRGLIIDAGVRDVRDLTEMNFPVWSKAIHAKGTVKATLGSVNIPVVCA-----NALVNPGDVVVAD 165 (222)
T ss_pred eehHHHHHHHHHCCCeEEEEecccCCHHHHhhCCCceEEeecCCCCCCCCCccccCCCEEEC-----CEEECCCCEEEEc
Confidence 99999999999999999999999999999999999999999999877777899999999999 9999999999999
Q ss_pred CCceEEecCCcC
Q 030761 160 SDGILVSKSELS 171 (172)
Q Consensus 160 ~dGVvviP~~l~ 171 (172)
+|||||||++++
T Consensus 166 ~dGVvviP~~~~ 177 (222)
T TIGR02798 166 DDGVVVVPRANA 177 (222)
T ss_pred CCcEEEEcHHHH
Confidence 999999999864
No 8
>COG0684 MenG Demethylmenaquinone methyltransferase [Coenzyme metabolism]
Probab=100.00 E-value=6.6e-49 Score=316.90 Aligned_cols=160 Identities=41% Similarity=0.697 Sum_probs=143.4
Q ss_pred hhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHH
Q 030761 7 TAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLG 86 (172)
Q Consensus 7 t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a 86 (172)
|.++||++..+.-.+....+.|.+++++++++|+|+|+||||.++|+..+.+|++++||||||||++++.++|+||++|+
T Consensus 13 ~~~~~d~~~~~~a~~~~g~~~~~i~p~~~~~~~~G~A~TV~~~~~d~~~~~al~~~~~GdVLVid~~g~~~~A~~Gd~la 92 (210)
T COG0684 13 TLDLCDAATVSDALGRVGVVDPGIRPFGGRSSFVGPAVTVRCFPDDWLLHVALEQAGPGDVLVIDGGGDLRRALWGDLLA 92 (210)
T ss_pred hhhhcCcccchhhhhhcCCcccccccCCCCCcceeEEEEEEEeCCCchhhheeecCCCCCEEEEeCCCCcceeehHHHHH
Confidence 44444444332212233445667888888899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcCCceEEe
Q 030761 87 QLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADSDGILVS 166 (172)
Q Consensus 87 ~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~dGVvvi 166 (172)
++|+.|||+|+||||+|||++++++|+||+||++++|.++.|...+++|+||+|| |++|+|||+||||+|||||+
T Consensus 93 ~~a~~~G~~GvVidG~vRDv~~l~el~~pv~a~~~~p~~~~k~~~geinvpV~~g-----Gv~v~PGD~vvgD~dGvVVv 167 (210)
T COG0684 93 TLAKVRGWAGVVIDGAVRDVDELRELDFPVFARGVTPRGATKRGIGEVNVPVTCG-----GVTVNPGDIVVADADGVVVV 167 (210)
T ss_pred HHHHHcCccEEEEeceeechHHHhhcCCCeEeccccCCCCCcCCcceecccEEEC-----CEEECCCCEEEEcCCceEEe
Confidence 9999999999999999999999999999999999999999999999999999999 99999999999999999999
Q ss_pred cCCcC
Q 030761 167 KSELS 171 (172)
Q Consensus 167 P~~l~ 171 (172)
|++++
T Consensus 168 p~~~~ 172 (210)
T COG0684 168 PAELA 172 (210)
T ss_pred ccchh
Confidence 99874
No 9
>PF03737 Methyltransf_6: Demethylmenaquinone methyltransferase; InterPro: IPR005493 This entry represents a structural motif found in demethylmenaquinone methyltransferases and in the regulator of ribonuclease E activity A (RraA). These proteins contain a swivelling 3-layer beta/beta/alpha domain that appears to be mobile in most multi-domain proteins known to contain it. These proteins are structurally similar, and may have distant homology, to the phosphohistidine domain of pyruvate phosphate dikinase. The RraA fold is an ancient platform that has been adapted for a wide range of functions. RraA had been identified as a putative demethylmenaquinone methyltransferase and was annotated as MenG, but further analysis showed that RraA lacked the structural motifs usually required for methylases. The Escherichia coli protein regulator RraA acts as a trans-acting modulator of RNA turnover, binding essential endonuclease RNase E and inhibiting RNA processing []. RNase E forms the core of a large RNA-catalysis machine termed the degradosomes. RraA (and RraB) causes remodelling of degradosome composition, which is associated with alterations in RNA decay and global transcript abundance and as such is a bacterial mechanism for the regulation of RNA cleavage. Demethylmenaquinone methyltransferases convert dimethylmenaquinone (DMK) to menaquinone (MK) in the final step of menaquinone biosynthesis. This region is also found at the C terminus of the DlpA protein Q48806 from SWISSPROT.; PDB: 3C8O_A 2PCN_A 3K4I_B 2YJV_A 1Q5X_B 2C5Q_D 2YJT_B 1NXJ_B 3NOJ_A 1J3L_A ....
Probab=100.00 E-value=4.5e-48 Score=300.17 Aligned_cols=152 Identities=38% Similarity=0.665 Sum_probs=137.3
Q ss_pred CCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeec-CcHHHHHHHhhCCCCcEEEEEcCCCCCcceeh
Q 030761 4 VVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFE-DNVLVRELLETRGEGKVLVIDGGGSMRCALVG 82 (172)
Q Consensus 4 ~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G 82 (172)
.++|++|||+|++ .++.+.|.++++.+.++++|+|+|+++.+ ++...+++++.++||+|||+++.++.++|+||
T Consensus 2 ~i~ta~l~Dal~~-----~~~~~~~~~~~~~~~~~~~G~A~Tv~~~~~~~~~~~~~i~~~~~G~VlVid~~~~~~~a~~G 76 (154)
T PF03737_consen 2 NISTADLCDALGK-----RLGGMNPIIRPLPPGMKIVGPAVTVRFAPGDNLLVREAIDAAPPGDVLVIDGGGDTDCAVWG 76 (154)
T ss_dssp HCHHHHHHHHHGG-----TSEEEESTSEESSSCSSEEEEEEEEEESSTBSHHHHHHHTSS-TTEEEEEEETTGSSSEEE-
T ss_pred ccchhhHhHCccc-----ccCEeccccccCCCCCEEEEEEEEEEEECCCCHHHHHHHhcCCCCeEEEEECCCCcceeeEC
Confidence 4789999999985 24556677777788899999999999998 88899999999999999999999988999999
Q ss_pred HHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcCCc
Q 030761 83 GNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADSDG 162 (172)
Q Consensus 83 ~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~dG 162 (172)
|+|+++|+++|++|+|+||++||++||++++||+||+|++|..+.++..+++|+||+|+ |++|+|||+||||.||
T Consensus 77 ~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~Pvfa~g~~p~~~~~~~~~~~~~pv~~g-----Gv~V~pGD~I~aD~dG 151 (154)
T PF03737_consen 77 ELMATAAKARGVAGVVIDGAVRDVDEIRELGFPVFARGTTPRGGKKRGVGEINVPVTIG-----GVTVNPGDIIVADDDG 151 (154)
T ss_dssp HHHHHHHHHTTBSEEEEEEEES-HHHHTTSSSEEEEEEE-SSBTBCSSESEESSEEEET-----TEEE-TTSEEEEETTE
T ss_pred HHHHHHHHHCCCeEEECCCcccCHHHHhhcCCCeEecccCcccCcceeeeeeCCeEEEC-----CEEECCCCEEEECCCc
Confidence 99999999999999999999999999999999999999999987778899999999999 9999999999999999
Q ss_pred eEE
Q 030761 163 ILV 165 (172)
Q Consensus 163 Vvv 165 (172)
|||
T Consensus 152 VvV 154 (154)
T PF03737_consen 152 VVV 154 (154)
T ss_dssp EEE
T ss_pred EEC
Confidence 997
No 10
>PRK08245 hypothetical protein; Validated
Probab=100.00 E-value=4.4e-48 Score=319.31 Aligned_cols=162 Identities=26% Similarity=0.324 Sum_probs=143.4
Q ss_pred CCCCCChhhHhHhhhcccc-CCceecccccceecCCC-ceEEEEEEEEEeec-Cc------------HHHHHHHhhCCCC
Q 030761 1 MAGVVATAEACDSNAALLA-SGDLRVLQPVFQIYGQC-RSFSGPVVTLKVFE-DN------------VLVRELLETRGEG 65 (172)
Q Consensus 1 ~l~~~~t~~v~Dal~~~~~-~g~~~~l~p~~~~~~~~-~~~~G~A~Tv~~~~-d~------------~~~~~~~~~~~~G 65 (172)
+|++++|++|||+|+++|+ .+++..++|.++ . .+++|+|+||++.+ ++ ...+++++.++||
T Consensus 13 ~l~~l~t~~v~Dal~~~g~~~~~~~~i~pl~p----~~~~~~G~A~TV~~~p~~~~~~~~~~~~~~~~~~~~aid~~~~G 88 (240)
T PRK08245 13 ALKRVSTATLTTALFKRGLRNQFIRGVRPLRP----GGPRMVGPAFTLRFVPAREDLNTPESFADPESPQRAAIETCPPG 88 (240)
T ss_pred HHhcCChhHHHHHHHhcCCccccCCCceecCC----CCCeEEEEEEEEEeecCCCcccccccccccchhHHHHHhccCCC
Confidence 4789999999999999876 334555565443 3 48999999999985 21 1378999999999
Q ss_pred cEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCC-CCccceeceeEEEeeec
Q 030761 66 KVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSN-KKGHGDKHVPVYIAGVY 144 (172)
Q Consensus 66 ~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~-~~~~~~~~vpV~ig~~~ 144 (172)
||||||+.+..+.|+|||+|+++|+++|++|+|+||++||+++|++++|||||+|++|..+. +..++++|+||+||
T Consensus 89 dVlVid~~g~~~~a~~G~~~~~~a~~~G~~G~VidG~vRD~~ei~~~gfPvfarg~~p~~~~~~~~~~~~nvPV~ig--- 165 (240)
T PRK08245 89 CVLVVDARGDARAGSFGDILCTRLKKRGVAGLVTDGGVRDSPGIAALGLPVWCAGPSAPTNLTGLTAVDINVPIGCG--- 165 (240)
T ss_pred eEEEEECCCCCCccccHHHHHHHHHHCCCeEEEEeeccCCHHHHhhCCCceEecccCCCCCCCCCceEeecCCEEEC---
Confidence 99999999988999999999999999999999999999999999999999999999997664 56789999999999
Q ss_pred cCCeEEccCCEEEEcCCceEEecCCcC
Q 030761 145 IAGSFIRDGEWLYADSDGILVSKSELS 171 (172)
Q Consensus 145 ~~gv~V~pGD~v~aD~dGVvviP~~l~ 171 (172)
|++|+|||+|+||+|||+|||++++
T Consensus 166 --Gv~V~PGD~I~aD~dGVvvIP~~~a 190 (240)
T PRK08245 166 --GVAVFPGDIIVADDDGVVVIPAALA 190 (240)
T ss_pred --CEEEcCCCEEEEcCCceEEEcHHHH
Confidence 9999999999999999999998864
No 11
>PRK07028 bifunctional hexulose-6-phosphate synthase/ribonuclease regulator; Validated
Probab=100.00 E-value=2.9e-45 Score=323.58 Aligned_cols=158 Identities=28% Similarity=0.425 Sum_probs=143.7
Q ss_pred CCCCCChhhHhHhhhccccCCceecccccceecCCCceEEEEEEEEEeec-CcHHHHHHHhhCCCCcEEEEEcCCCCCcc
Q 030761 1 MAGVVATAEACDSNAALLASGDLRVLQPVFQIYGQCRSFSGPVVTLKVFE-DNVLVRELLETRGEGKVLVIDGGGSMRCA 79 (172)
Q Consensus 1 ~l~~~~t~~v~Dal~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~~~~~~~G~VlVid~~g~~~~a 79 (172)
+|++++|++|||+|+++|. +..++|.+ ++.+++|+|+|+++.+ |+...+++++.++|||||||++ ++.++|
T Consensus 232 ~l~~~~t~~i~d~l~~~g~---~~~i~p~~----~~~~~~G~A~Tv~~~~~d~~~~~~~~~~~~~G~VlVi~~-~~~~~a 303 (430)
T PRK07028 232 IFMQVSTPNISDAMHRKGA---MKGIKPLV----RGTKMVGKAVTVQTFAGDWAKPVEAIDVAKPGDVIVIYN-SSKDIA 303 (430)
T ss_pred HhcCCCCCcHHhhhhccCC---CceeeecC----CCCeEEEEEEEEEeeCCCcHHHHHHHhcCCCCeEEEEEC-CCCCce
Confidence 4789999999999998653 44555554 3579999999999996 7778899999999999999999 778999
Q ss_pred eehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEc
Q 030761 80 LVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYAD 159 (172)
Q Consensus 80 ~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD 159 (172)
+|||+|+++|+++|++|+|+||++||++++++++|||||+|++|.++.+...+++|+||+|| |++|+|||+|+||
T Consensus 304 ~~G~~~~~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~~~g~~p~~~~~~~~~~~nvpv~~g-----gv~V~pGD~i~aD 378 (430)
T PRK07028 304 PWGELATLSCLNKGIAGVVIDGAVRDVDEIRKLGFPVFARAIVPNAGEPKGFGEINAEIVCG-----GQTVRPGDWIIGD 378 (430)
T ss_pred eecHHHHHHHHHCCCeEEEEeeccCCHHHHhhCCCCeEeeecCCCCCCCCCccccCCCEEEC-----CEEECCCCEEEEc
Confidence 99999999999999999999999999999999999999999999877666789999999999 9999999999999
Q ss_pred CCceEEecCCcC
Q 030761 160 SDGILVSKSELS 171 (172)
Q Consensus 160 ~dGVvviP~~l~ 171 (172)
+|||||||++++
T Consensus 379 ~dGvvvip~~~~ 390 (430)
T PRK07028 379 ENGVVVVPKERA 390 (430)
T ss_pred CCceEEEcHHHH
Confidence 999999998864
No 12
>PRK12764 hypothetical protein; Provisional
Probab=100.00 E-value=2.5e-44 Score=323.10 Aligned_cols=162 Identities=24% Similarity=0.336 Sum_probs=144.1
Q ss_pred CCCCCChhhHhHhhhccccCC-ceecccccceecCCCceEEEEEEEEEeec-Cc----------HHHHHHHhhCCCCcEE
Q 030761 1 MAGVVATAEACDSNAALLASG-DLRVLQPVFQIYGQCRSFSGPVVTLKVFE-DN----------VLVRELLETRGEGKVL 68 (172)
Q Consensus 1 ~l~~~~t~~v~Dal~~~~~~g-~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~----------~~~~~~~~~~~~G~Vl 68 (172)
+|++++|++|||+|+++++.+ .+..++|.+ +++|++|+|+|+++.+ ++ ...+++++.++|||||
T Consensus 274 ~l~~l~ta~vsdal~~~g~~~~~~~~i~p~~----p~~k~vG~A~Tv~~~p~~~~~~~~~~~~~~~~~~aid~~~pGdVl 349 (500)
T PRK12764 274 KLASVATATLSAQLRKRGLNNVSIDGLTPTR----PGRRMVGRARTLRYVPNREDLFKEHGGGFNAQKRAFDSVNPGEVL 349 (500)
T ss_pred HHhcCCcchHHHHHhhcCCCcccccCceecC----CCCeEEEEEEEEEeecCCcccccccccchhHHHHHHhcCCCCeEE
Confidence 588999999999999987643 345556544 4579999999999985 22 3467999999999999
Q ss_pred EEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceecCCCCCC-ccceeceeEEEeeeccCC
Q 030761 69 VIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHPLKSNKK-GHGDKHVPVYIAGVYIAG 147 (172)
Q Consensus 69 Vid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p~~~~~~-~~~~~~vpV~ig~~~~~g 147 (172)
|||+.++.++|+|||+|+++|+++|++|+|+||+|||+++|++++|||||+|++|..+.+. ..+++|+||+|| |
T Consensus 350 VId~~g~~~~a~~Gel~a~~a~~~G~~G~ViDG~vRD~~ei~~lg~PVfarg~~p~~~~~~~~~~~~nvpV~~g-----G 424 (500)
T PRK12764 350 VIEARGEKGTGTLGDILALRAQVRGAAGVVTDGGVRDYAAVAELGLPVFFAGPHPAVLGRRHVPWDVDITVACG-----G 424 (500)
T ss_pred EEECCCCCCeEchHHHHHHHHHHCCCeEEEEeecccCHHHHHhCCCCeEEeecCCCCCCcCcccceeCCcEEEC-----C
Confidence 9999999999999999999999999999999999999999999999999999999866543 568999999999 9
Q ss_pred eEEccCCEEEEcCCceEEecCCcC
Q 030761 148 SFIRDGEWLYADSDGILVSKSELS 171 (172)
Q Consensus 148 v~V~pGD~v~aD~dGVvviP~~l~ 171 (172)
++|+|||+|+||+|||||||++++
T Consensus 425 v~V~PGDiIvaD~dGVvvIP~~~a 448 (500)
T PRK12764 425 ATVQPGDVIVGDDDGVVVIPPALA 448 (500)
T ss_pred EEEcCCCEEEEcCCcEEEEcHHHH
Confidence 999999999999999999999864
No 13
>PRK13016 dihydroxy-acid dehydratase; Provisional
Probab=62.32 E-value=27 Score=32.76 Aligned_cols=63 Identities=11% Similarity=0.129 Sum_probs=39.5
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHhh----CCCCcEEEEEcCCCCCcceehH---HH-HHHHHHCCC--cEEEecCc
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLET----RGEGKVLVIDGGGSMRCALVGG---NL-GQLAHNNGW--SGIVVNGC 102 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~~----~~~G~VlVid~~g~~~~a~~G~---l~-a~~a~~~G~--~G~VidG~ 102 (172)
.++-|||+- +++.....++++. +++|||+||-..|....-=+=| +. .+++..+|. ...|+||.
T Consensus 403 ~~~~GpA~V---F~see~a~~ai~~g~i~i~~GdVvVIRyeGPkGgPGMpE~~ml~~~~~~~~~Gl~~valITDGR 475 (577)
T PRK13016 403 LVHRGPALV---FDSYPEMKAAIDDENLDVTPDHVMVLRNAGPQGGPGMPEWGMLPIPKKLLKQGVRDMVRISDAR 475 (577)
T ss_pred cEEEeeEEE---ECCHHHHHHHHhCCCcCCCCCeEEEEeCCCCCCCCCCcccccchhHHHHHHcCCceeEEeccCc
Confidence 346666643 3444566677754 3499999998877543233445 44 566666776 36799994
No 14
>PRK12448 dihydroxy-acid dehydratase; Provisional
Probab=61.07 E-value=28 Score=32.91 Aligned_cols=64 Identities=23% Similarity=0.284 Sum_probs=40.6
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHHHHHH--HCCC---cEEEecCcc
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLGQLAH--NNGW---SGIVVNGCI 103 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a~~a~--~~G~---~G~VidG~v 103 (172)
.++-|||+ ++++.....++++ .+.+|||+||-..|....-=+-|++...+. .+|. ..+|+||..
T Consensus 445 ~~~~GpA~---VFdsee~a~~ai~~g~I~~gdVvVIRyeGPkGgPGMpEml~~t~aL~g~Glg~~VaLITDGRf 515 (615)
T PRK12448 445 LKFTGPAR---VFESQDDAVEAILGGKVKAGDVVVIRYEGPKGGPGMQEMLYPTSYLKSKGLGKACALITDGRF 515 (615)
T ss_pred eEEEEeEE---EECCHHHHHHHHhcCCCCCCeEEEEeCCCCCCCcCHHHHHHHHHHHHhCCCCCceEEecccCc
Confidence 34566644 3444455566664 489999999988775433345566654433 5555 789999943
No 15
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=52.76 E-value=18 Score=29.83 Aligned_cols=41 Identities=15% Similarity=0.276 Sum_probs=33.2
Q ss_pred CcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcC-CCcEEE
Q 030761 77 RCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGC-GIGVRA 118 (172)
Q Consensus 77 ~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~-~~pvfa 118 (172)
+....=-.||.+|.+-|+.|+=++ .++|+.++++. ++|++-
T Consensus 30 ~~~~iv~~mA~Aa~~gGAvgiR~~-gv~dIkai~~~v~vPIIG 71 (229)
T COG3010 30 DSPEIVAAMALAAEQGGAVGIRIE-GVEDIKAIRAVVDVPIIG 71 (229)
T ss_pred cchhHHHHHHHHHHhCCcceEeec-chhhHHHHHhhCCCCeEE
Confidence 444444567888889999999999 58999999986 999974
No 16
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=51.27 E-value=33 Score=23.27 Aligned_cols=37 Identities=19% Similarity=0.484 Sum_probs=25.2
Q ss_pred hhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecC
Q 030761 60 ETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNG 101 (172)
Q Consensus 60 ~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG 101 (172)
..--.|.|++++.+. + .| ......|++.|++|+|+--
T Consensus 29 ~~~~~gkIvlv~rg~---~-~~-~~k~~~a~~~GA~gvIi~~ 65 (101)
T PF02225_consen 29 GSDVKGKIVLVERGS---C-SF-DDKVRNAQKAGAKGVIIYN 65 (101)
T ss_dssp TSTCTTSEEEEESTS---S-CH-HHHHHHHHHTTESEEEEE-
T ss_pred CccccceEEEEecCC---C-CH-HHHHHHHHHcCCEEEEEEe
Confidence 345679999996543 2 33 5556778899999888765
No 17
>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a
Probab=49.71 E-value=34 Score=26.16 Aligned_cols=43 Identities=19% Similarity=0.203 Sum_probs=29.1
Q ss_pred CCCCcEEEEEcCCC-----------CCcceehH--HHHHHHHHCCCcEEEecCccC
Q 030761 62 RGEGKVLVIDGGGS-----------MRCALVGG--NLGQLAHNNGWSGIVVNGCIR 104 (172)
Q Consensus 62 ~~~G~VlVid~~g~-----------~~~a~~G~--l~a~~a~~~G~~G~VidG~vR 104 (172)
--.|+|+|+..+.. ...+.|+. .-...|+++|++|+|+=-..+
T Consensus 45 DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIii~~~~ 100 (142)
T cd04814 45 DVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLIVHELA 100 (142)
T ss_pred CCCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEEEeCCC
Confidence 35799999864422 23456654 367889999999998755443
No 18
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=48.49 E-value=9.6 Score=33.17 Aligned_cols=60 Identities=27% Similarity=0.402 Sum_probs=44.5
Q ss_pred HHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceec
Q 030761 56 RELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHP 123 (172)
Q Consensus 56 ~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p 123 (172)
.++++ ..+|| -||++++ .+..|-...+.|+++|.+-+ .-|||.+++.++.=..|+.|.+-
T Consensus 153 ~dfv~-L~~GD-~vIQNga---nS~VG~~ViQlaka~Gikti---nvVRdR~~ieel~~~Lk~lGA~~ 212 (354)
T KOG0025|consen 153 KDFVQ-LNKGD-SVIQNGA---NSGVGQAVIQLAKALGIKTI---NVVRDRPNIEELKKQLKSLGATE 212 (354)
T ss_pred HHHHh-cCCCC-eeeecCc---ccHHHHHHHHHHHHhCcceE---EEeecCccHHHHHHHHHHcCCce
Confidence 34444 66799 7777654 56789999999999998765 45899888888777777777543
No 19
>PRK00911 dihydroxy-acid dehydratase; Provisional
Probab=48.34 E-value=58 Score=30.50 Aligned_cols=61 Identities=23% Similarity=0.329 Sum_probs=38.7
Q ss_pred EEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHHHHHH--HCCC---cEEEecCc
Q 030761 39 FSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLGQLAH--NNGW---SGIVVNGC 102 (172)
Q Consensus 39 ~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a~~a~--~~G~---~G~VidG~ 102 (172)
+-|||+ ++++.....++++ .+.+|||+||-..|....-=+=|++...+. .+|. ..+|+||.
T Consensus 397 ~~GpA~---VF~see~a~~ai~~g~I~~gdVvViRyeGPkGgPGMpEml~~t~al~g~Gl~~~valITDGR 464 (552)
T PRK00911 397 FTGPAR---VFDSEEEAMEAILAGKIKAGDVVVIRYEGPKGGPGMREMLAPTSAIVGAGLGDDVALITDGR 464 (552)
T ss_pred eeeeEE---EECCHHHHHHHHhcCCCCCCeEEEEeCCCCCCCCChHHHhhHHHHHHhCCCCCceEEecccc
Confidence 666643 4445556666665 489999999988775433334466554443 4444 58899994
No 20
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=45.03 E-value=59 Score=30.33 Aligned_cols=64 Identities=23% Similarity=0.304 Sum_probs=39.2
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHHHHHH--HCCC---cEEEecCcc
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLGQLAH--NNGW---SGIVVNGCI 103 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a~~a~--~~G~---~G~VidG~v 103 (172)
.++-|||+- +++.....++++ .+.+|||+||-..|....-=+=|++...+. .+|. ..+|+||..
T Consensus 380 ~~~~G~A~V---F~see~a~~ai~~g~i~~gdVvViRyeGPkGgPGMpEml~~t~al~g~glg~~VaLITDGRf 450 (535)
T TIGR00110 380 TKFEGPAKV---FESEEEALEAILGGKIKEGDVVVIRYEGPKGGPGMPEMLAPTSAIKGMGLGKSVALITDGRF 450 (535)
T ss_pred cEEEEeEEE---ECCHHHHHHHHhcCCCCCCeEEEEeCCCCCCCCChhhhcchHHHHHhCCCCCceEEeccCcc
Confidence 346666543 344455566665 489999999988775433344465544333 3443 689999943
No 21
>PRK08296 hypothetical protein; Provisional
Probab=44.81 E-value=47 Score=31.39 Aligned_cols=92 Identities=17% Similarity=0.171 Sum_probs=52.4
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccCC-HHHHhcCCCc
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIRD-VDEINGCGIG 115 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vRD-~~~i~~~~~p 115 (172)
..+.|+++-++-. +-+...++|+|||...-.......+ ..+.|+|++-.-.- ...|
T Consensus 508 G~v~G~vrvv~~~-------~~~~~~~~g~ILV~~~tdP~~~~~~----------~~~~GiVte~Gg~~SHaAI------ 564 (603)
T PRK08296 508 GVVEGPARVIRSA-------DELSEVQEGEILVCPVTSPSWAPIF----------AKIKATVTDIGGVMSHAAI------ 564 (603)
T ss_pred CeEEEEEEEeCCH-------HHHHhccCceEEEeCCCCHHHHHHH----------HHheEEEEecCCCcchHHH------
Confidence 4678888776422 2235678999999875433221111 45778888643211 1111
Q ss_pred EEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcC-CceEEe
Q 030761 116 VRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADS-DGILVS 166 (172)
Q Consensus 116 vfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~-dGVvvi 166 (172)
--.+.++|..+|.. ..--.++.||.|.-|. .|.|.|
T Consensus 565 --------------vARe~GIPaVvgv~-~at~~l~dG~~V~vDg~~G~V~i 601 (603)
T PRK08296 565 --------------VCREYGLPAVVGTG-NATKRIKTGQRLRVDGTKGVVTI 601 (603)
T ss_pred --------------HHHHcCCCEEEcCc-cHhhhcCCCCEEEEECCCCEEEE
Confidence 12345566555511 0123578899999887 788876
No 22
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=44.80 E-value=45 Score=24.53 Aligned_cols=32 Identities=22% Similarity=0.438 Sum_probs=24.9
Q ss_pred CCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 64 EGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 64 ~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.|.|++++.++ |. | ...+..|+++|++|+|+-
T Consensus 40 ~gkIaLv~RG~---C~-f-~~K~~~Aq~aGA~avII~ 71 (126)
T cd02126 40 KGKIAIMERGD---CM-F-VEKARRVQKAGAIGGIVI 71 (126)
T ss_pred CceEEEEECCC---Cc-H-HHHHHHHHHCCCcEEEEE
Confidence 58999999753 33 3 566888999999999984
No 23
>PRK06131 dihydroxy-acid dehydratase; Validated
Probab=44.25 E-value=71 Score=30.04 Aligned_cols=63 Identities=14% Similarity=0.070 Sum_probs=37.9
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHhh----CCCCcEEEEEcCCCCCcceehH---HHHHHH-HHCCC--cEEEecCc
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLET----RGEGKVLVIDGGGSMRCALVGG---NLGQLA-HNNGW--SGIVVNGC 102 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~~----~~~G~VlVid~~g~~~~a~~G~---l~a~~a-~~~G~--~G~VidG~ 102 (172)
.++-|||+-. ++.....++++. +.+|||+||-..|....-=+=| +..+.+ +.+|. .++|+||.
T Consensus 398 ~~~~G~A~VF---~see~a~~ai~~g~i~i~~gdVvVIRyeGPkGgPGMpE~~mL~~t~al~g~Gl~~vaLITDGR 470 (571)
T PRK06131 398 LKHEGRAVVF---EGYEDYKARIDDPDLDVDEDTVLVLRNAGPKGYPGMPEVGNMPIPKKLLRQGVKDMVRISDAR 470 (571)
T ss_pred cEEEeeeEEE---CCHHHHHHHHhCCCcCCCCCeEEEEeCCCCCCCCCCccccccccHHHHHhCCCceeEEeccCC
Confidence 4566666543 444556667754 3499999998777543233445 333333 35564 48899994
No 24
>PRK13017 dihydroxy-acid dehydratase; Provisional
Probab=43.38 E-value=83 Score=29.76 Aligned_cols=62 Identities=19% Similarity=0.215 Sum_probs=38.5
Q ss_pred eEEEEEEEEEeecCcHHHHHHHhh----CCCCcEEEEEcCCCCCcceehHH---HHHHH-HHCCC--cEEEecCc
Q 030761 38 SFSGPVVTLKVFEDNVLVRELLET----RGEGKVLVIDGGGSMRCALVGGN---LGQLA-HNNGW--SGIVVNGC 102 (172)
Q Consensus 38 ~~~G~A~Tv~~~~d~~~~~~~~~~----~~~G~VlVid~~g~~~~a~~G~l---~a~~a-~~~G~--~G~VidG~ 102 (172)
++-|||+-. ++.....++++. .++|||+||-..|....-=+-|+ ..+.+ ..+|. ..+|+||.
T Consensus 420 ~~~GpA~VF---~see~a~~ai~~g~i~~~~gdVvVIRyeGPkGgPGMpEm~~l~~t~al~g~Gl~~VaLITDGR 491 (596)
T PRK13017 420 AFEGRAVVF---DGPEDYHARIDDPALDIDEHCILVIRGAGPVGYPGSAEVVNMQPPAALLKRGIRSLPCIGDGR 491 (596)
T ss_pred eEEEeEEEE---CCHHHHHHHHhCCCCCCCCCeEEEEeCCCCCCCCCCcchhhchhHHHHHhCCCCeeEEEcccC
Confidence 677776544 344455666654 36777999988775433344463 33333 35666 78999994
No 25
>PF00920 ILVD_EDD: Dehydratase family; InterPro: IPR000581 Two dehydratases, dihydroxy-acid dehydratase (4.2.1.9 from EC) (gene ilvD or ILV3) and 6-phosphogluconate dehydratase (4.2.1.12 from EC) (gene edd) have been shown to be evolutionary related []. Dihydroxy-acid dehydratase catalyses the fourth step in the biosynthesis of isoleucine and valine, the dehydratation of 2,3-dihydroxy-isovaleic acid into alpha-ketoisovaleric acid. 6-Phosphogluconate dehydratase catalyses the first step in the Entner-Doudoroff pathway, the dehydratation of 6-phospho-D-gluconate into 6-phospho-2-dehydro-3-deoxy-D-gluconate. Another protein containing this signature is the Escherichia coli hypothetical protein yjhG. The N-terminal part of the proteins contains a cysteine that could be involved in the binding of a 2Fe-2S iron-sulphur cluster [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GP4_B.
Probab=42.58 E-value=21 Score=33.13 Aligned_cols=64 Identities=20% Similarity=0.305 Sum_probs=35.8
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHH--HHHHHCCC---cEEEecCcc
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLG--QLAHNNGW---SGIVVNGCI 103 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a--~~a~~~G~---~G~VidG~v 103 (172)
.++-|+|+- +++.....+++. ++.+|||+||-..|....-=+=|++. .+...+|. ...|+||..
T Consensus 369 ~~~~G~A~V---Fdsee~a~~ai~~~~i~~gdVvVIRyeGPkGgPGMpEml~~t~al~g~Glg~~valITDGRf 439 (521)
T PF00920_consen 369 RRFTGPARV---FDSEEDAIDAIDDGKIKPGDVVVIRYEGPKGGPGMPEMLSPTAALVGMGLGKSVALITDGRF 439 (521)
T ss_dssp SEEEEEEEE---ESSGGGHHHHHHTTTTSSSEEEEE-S-SHHHH-S--B--SSHHHHHHHCTT--EEEEESSB-
T ss_pred cEEEEEEEE---eCCHHHHHHHHhcCCcCCCCEEEEeCCCCCcCcCchhhhhHHHHHhhCCCCCceeEeecCcc
Confidence 467777654 444455566664 48999999998766322213334432 22336666 899999953
No 26
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=42.31 E-value=1e+02 Score=25.35 Aligned_cols=76 Identities=20% Similarity=0.223 Sum_probs=43.5
Q ss_pred ccccceecCCCceEEEEEEEEEee-cCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccC
Q 030761 26 LQPVFQIYGQCRSFSGPVVTLKVF-EDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIR 104 (172)
Q Consensus 26 l~p~~~~~~~~~~~~G~A~Tv~~~-~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vR 104 (172)
..|.|..+.....+-|+.+=+.+- .++...++....--.|.|+++..+.. +=..-...|+++|++|+|+---..
T Consensus 32 ~~~~f~a~s~sg~v~g~lVyvnyG~~~D~~~L~~~gvdv~GKIvLvr~G~~-----~~~~Kv~~A~~~GA~gVIiy~Dp~ 106 (220)
T cd02121 32 VVPPFHAYSASGNVTAELVYANYGSPEDFEYLEDLGIDVKGKIVIARYGGI-----FRGLKVKNAQLAGAVGVIIYSDPA 106 (220)
T ss_pred ccccceecCCCCCceEEEEEcCCCcHHHHHHHhhcCCCCCCeEEEEECCCc-----cHHHHHHHHHHcCCEEEEEEeCch
Confidence 345566666665555665555432 12211111112234799999876432 224566778899999999865554
Q ss_pred CH
Q 030761 105 DV 106 (172)
Q Consensus 105 D~ 106 (172)
|.
T Consensus 107 d~ 108 (220)
T cd02121 107 DD 108 (220)
T ss_pred hc
Confidence 43
No 27
>PRK08211 putative dehydratase; Provisional
Probab=42.26 E-value=65 Score=30.76 Aligned_cols=62 Identities=13% Similarity=0.231 Sum_probs=38.9
Q ss_pred eEEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHHHHHH--HCCC---cEEEecCcc
Q 030761 38 SFSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLGQLAH--NNGW---SGIVVNGCI 103 (172)
Q Consensus 38 ~~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a~~a~--~~G~---~G~VidG~v 103 (172)
++-|||+- +++.....++++ .+.+|||+||-..|... .=+=|++...+. ..|. ..+|+||..
T Consensus 468 ~~~GpArV---F~seeda~~AI~~g~I~~GdVvVIRyeGPkG-~GMpEml~~t~al~g~glG~~VALITDGRF 536 (655)
T PRK08211 468 RHTGRARV---FTSEKSAIAAIKHGEIKAGDILVLIGGGPSG-TGMEETYQITSALKHLSFGKHVSLITDARF 536 (655)
T ss_pred EEEEeEEE---ECCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhhchhhhHhhcCCCCeEEEeccCCC
Confidence 56676543 444455666665 38999999998887543 333366554433 3233 779999943
No 28
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=40.36 E-value=61 Score=24.62 Aligned_cols=83 Identities=16% Similarity=0.091 Sum_probs=47.6
Q ss_pred ceEEEEEEEEEeec-CcH-HHHHHHhhCCCCcEEEEEcCCCC-----CcceehH--HHHHHHHHCCCcEEEecCccCC--
Q 030761 37 RSFSGPVVTLKVFE-DNV-LVRELLETRGEGKVLVIDGGGSM-----RCALVGG--NLGQLAHNNGWSGIVVNGCIRD-- 105 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~-d~~-~~~~~~~~~~~G~VlVid~~g~~-----~~a~~G~--l~a~~a~~~G~~G~VidG~vRD-- 105 (172)
..+-|+.+-+-+-. +.. ...++-..--.|+|+++..+... +.+.|+. .-...|.++|++|+|+---..+
T Consensus 20 g~v~gelVfvGyG~~~~~~~~~Dy~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~~~~ 99 (137)
T cd04820 20 ASVEAPLVFVGYGLVAPELGHDDYAGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPRSEK 99 (137)
T ss_pred CCceEeEEEecCCcCccCcCHhhccCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCcccc
Confidence 45667777665432 111 11222233457999999875421 2334543 3678889999999987655553
Q ss_pred ---HHHHhcC-CCcEEEc
Q 030761 106 ---VDEINGC-GIGVRAL 119 (172)
Q Consensus 106 ---~~~i~~~-~~pvfa~ 119 (172)
.+++... .=|.|..
T Consensus 100 ~~~~~~~~~~~~~~~~~~ 117 (137)
T cd04820 100 IRPWERSVNYADGPSMTW 117 (137)
T ss_pred cCCHHHHhhccCCCceEe
Confidence 4556654 3355543
No 29
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=40.23 E-value=1.1e+02 Score=24.35 Aligned_cols=65 Identities=17% Similarity=0.215 Sum_probs=38.4
Q ss_pred cceecCCCceEEEEEEEEEeecCcHHHHHHHhh---CCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 29 VFQIYGQCRSFSGPVVTLKVFEDNVLVRELLET---RGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 29 ~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~~~~---~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.|.++.+...+-|+.+=+..- ...-.+.|+. .-.|.|+++.-+.. .+|+.+. .|+++|++|+|+-
T Consensus 19 ~f~~~s~~G~v~g~lVyvn~G--~~~Df~~L~~~gv~v~GkIvLvr~G~~----~~~~Kv~-~A~~~GA~gvIiy 86 (183)
T cd02128 19 GYVAYSAAGTVTGKLVYANYG--RKKDFEDLQSVGVSVNGSVVLVRAGKI----SFAEKVA-NAEKLGAVGVLIY 86 (183)
T ss_pred cccCCCCCCceEEEEEEcCCC--CHHHHHHHHhcCCCCCCeEEEEECCCC----CHHHHHH-HHHHCCCEEEEEe
Confidence 455555555555655544221 1111233332 34799999987532 4566555 5999999999994
No 30
>PRK09054 phosphogluconate dehydratase; Validated
Probab=39.82 E-value=76 Score=30.07 Aligned_cols=53 Identities=13% Similarity=0.160 Sum_probs=35.9
Q ss_pred cCcHHHHHHHhh--CCCCcEEEEEcCCCCCcceehHHHHHH-----HHHCCC-cEEEecCcc
Q 030761 50 EDNVLVRELLET--RGEGKVLVIDGGGSMRCALVGGNLGQL-----AHNNGW-SGIVVNGCI 103 (172)
Q Consensus 50 ~d~~~~~~~~~~--~~~G~VlVid~~g~~~~a~~G~l~a~~-----a~~~G~-~G~VidG~v 103 (172)
++.....++++. +.+|+|+||-..|... .=+=|++... .+.+|. ..+|+||..
T Consensus 452 dsee~~~~Ai~~g~l~~g~VvViR~eGPkg-~GMpEm~~~Tp~l~~L~~~Gl~VALITDGRf 512 (603)
T PRK09054 452 DSQEEVQAAFKAGELDRDFVVVVRFQGPKA-NGMPELHKLTPPLGVLQDRGFKVALVTDGRM 512 (603)
T ss_pred CCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhhcccchhHHHHhCCCeEEEeccCcc
Confidence 344566677754 7899999998877543 3334776543 456675 789999953
No 31
>TIGR03432 yjhG_yagF probable dehydratase, YjhG/YagF family. This homolog of dihydroxy-acid dehydratases has an odd, sparse distribution. Members are found in two Acidobacteria, two Planctomycetes, Bacillus clausii KSM-K16, and (in two copies each) in strains K12-MG1655 and W3110 of Escherichia coli. The local context is not well conserved, but a few members are adjacent to homologs of the gluconate:H+ symporter (see TIGR00791).
Probab=38.60 E-value=77 Score=30.24 Aligned_cols=61 Identities=15% Similarity=0.229 Sum_probs=38.3
Q ss_pred eEEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHHHHHH--HCCC---cEEEecCc
Q 030761 38 SFSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLGQLAH--NNGW---SGIVVNGC 102 (172)
Q Consensus 38 ~~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a~~a~--~~G~---~G~VidG~ 102 (172)
++-|||+- +++.....++++ .+.+|||+||-..|... .=+=|++...+. ..|. ..+|+||.
T Consensus 462 ~~~GpArV---Fdsee~a~~AI~~g~I~~GdVvVIRyeGPkG-~GMpEml~~t~al~g~glG~~VALITDGR 529 (640)
T TIGR03432 462 RHTGPARV---FSSEKSAIAAIKHGKIEAGDVLVLIGRGPSG-TGMEETYQVTSALKYLSFGKHVALITDAR 529 (640)
T ss_pred EEEEeEEE---ECCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhhcchhhHhhcCCCCeEEEecccC
Confidence 56676543 344445566664 48999999998887543 344465543332 3333 77999994
No 32
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=36.21 E-value=22 Score=24.96 Aligned_cols=18 Identities=33% Similarity=0.674 Sum_probs=8.7
Q ss_pred CeEEccCCEEEEcCCceEE
Q 030761 147 GSFIRDGEWLYADSDGILV 165 (172)
Q Consensus 147 gv~V~pGD~v~aD~dGVvv 165 (172)
|+.|++||+|.+ .||.=+
T Consensus 37 Gv~v~~GD~I~a-InG~~v 54 (88)
T PF14685_consen 37 GVDVREGDYILA-INGQPV 54 (88)
T ss_dssp S----TT-EEEE-ETTEE-
T ss_pred CCCCCCCCEEEE-ECCEEC
Confidence 999999999987 344433
No 33
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=36.21 E-value=71 Score=24.63 Aligned_cols=69 Identities=13% Similarity=0.049 Sum_probs=39.3
Q ss_pred eEEEEEEEEEeecCcH--HHHHHHhhCCCCcEEEEEcCCC-----------CCcceehH--HHHHHHHHCCCcEEEecCc
Q 030761 38 SFSGPVVTLKVFEDNV--LVRELLETRGEGKVLVIDGGGS-----------MRCALVGG--NLGQLAHNNGWSGIVVNGC 102 (172)
Q Consensus 38 ~~~G~A~Tv~~~~d~~--~~~~~~~~~~~G~VlVid~~g~-----------~~~a~~G~--l~a~~a~~~G~~G~VidG~ 102 (172)
.+-|+.+-+-+--+.+ ...++-..--.|+|+++..+.. ...+-|.. .-...|+++|++|+|+---
T Consensus 19 ~vtg~lVfvGyGi~~~~~~~~Dy~giDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIv~~d 98 (151)
T cd04822 19 AVTAPVVFAGYGITAPELGYDDYAGLDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAVIVVNG 98 (151)
T ss_pred CceEeEEEecCCcCccccchhhccCCCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEEEEEeC
Confidence 4566666665431111 1122223335799999965431 12233443 4677889999999998655
Q ss_pred cCCH
Q 030761 103 IRDV 106 (172)
Q Consensus 103 vRD~ 106 (172)
.++.
T Consensus 99 ~~~~ 102 (151)
T cd04822 99 PNSH 102 (151)
T ss_pred Cccc
Confidence 5553
No 34
>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene [].; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.
Probab=33.72 E-value=41 Score=27.22 Aligned_cols=35 Identities=23% Similarity=0.473 Sum_probs=27.9
Q ss_pred HHHHHHHHCCCcEEEecCccCCHHHHhcC-CCcEEEc
Q 030761 84 NLGQLAHNNGWSGIVVNGCIRDVDEINGC-GIGVRAL 119 (172)
Q Consensus 84 l~a~~a~~~G~~G~VidG~vRD~~~i~~~-~~pvfa~ 119 (172)
.||.+|+.-|+.|+=++| +.|+.++++. ++||.-.
T Consensus 3 ~mA~Aa~~gGA~giR~~~-~~dI~aik~~v~lPIIGi 38 (192)
T PF04131_consen 3 RMAKAAEEGGAVGIRANG-VEDIRAIKKAVDLPIIGI 38 (192)
T ss_dssp HHHHHHHHCT-SEEEEES-HHHHHHHHTTB-S-EEEE
T ss_pred HHHHHHHHCCceEEEcCC-HHHHHHHHHhcCCCEEEE
Confidence 589999999999999996 6999999986 9999644
No 35
>cd00538 PA PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=31.99 E-value=99 Score=21.68 Aligned_cols=32 Identities=22% Similarity=0.507 Sum_probs=22.8
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEe
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVV 99 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vi 99 (172)
-.|.|++++.++ + .|.+ ....|++.|++|+|+
T Consensus 45 ~~GkIvl~~~g~---~-~~~~-k~~~a~~~GA~gvii 76 (126)
T cd00538 45 VKGKIVLVRRGG---C-SFSE-KVKNAQKAGAKAVII 76 (126)
T ss_pred ccceEEEEECCC---c-CHHH-HHHHHHHCCCEEEEE
Confidence 359999997543 2 3334 455678899999998
No 36
>KOG2666 consensus UDP-glucose/GDP-mannose dehydrogenase [Carbohydrate transport and metabolism; Signal transduction mechanisms]
Probab=31.65 E-value=37 Score=30.15 Aligned_cols=36 Identities=19% Similarity=0.291 Sum_probs=29.7
Q ss_pred HHHHCCCcEEEecCc-cCCHHHHhcCCCcEEEcceec
Q 030761 88 LAHNNGWSGIVVNGC-IRDVDEINGCGIGVRALGSHP 123 (172)
Q Consensus 88 ~a~~~G~~G~VidG~-vRD~~~i~~~~~pvfa~g~~p 123 (172)
...+.---..|.||. +=|.++|+++||-||+-|..+
T Consensus 434 I~~~MqkPAfiFDGR~ilD~~kLreIGF~v~sIGk~~ 470 (481)
T KOG2666|consen 434 IFDNMQKPAFIFDGRNILDHEKLREIGFIVYSIGKPL 470 (481)
T ss_pred HHHhccCCeEEecchhhccHHHHhhcceEEEEcCCCh
Confidence 334445578999998 889999999999999998765
No 37
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=31.45 E-value=94 Score=22.40 Aligned_cols=32 Identities=22% Similarity=0.493 Sum_probs=23.8
Q ss_pred CCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 64 EGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 64 ~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.|+|++++.++. .|.+. ...|+++|++|+|+-
T Consensus 43 ~GkIvLv~rg~c----~f~~K-~~~A~~aGA~avIi~ 74 (122)
T cd04816 43 KGAIVLVDRGGC----PFADK-QKVAAARGAVAVIVV 74 (122)
T ss_pred CCeEEEEECCCC----CHHHH-HHHHHHCCCcEEEEE
Confidence 689999986432 25554 557999999999983
No 38
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=31.06 E-value=1e+02 Score=22.19 Aligned_cols=33 Identities=24% Similarity=0.517 Sum_probs=25.2
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
-.|.|++++.++ |. |. .....|+++|++|+|+-
T Consensus 43 ~~gkIvlv~rg~---c~-f~-~K~~~A~~aGA~~vIv~ 75 (122)
T cd02130 43 VAGNIALIERGE---CP-FG-DKSALAGAAGAAAAIIY 75 (122)
T ss_pred CCCEEEEEECCC---CC-HH-HHHHHHHHCCCcEEEEE
Confidence 479999999643 33 44 46778999999999984
No 39
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=31.04 E-value=1e+02 Score=23.94 Aligned_cols=37 Identities=22% Similarity=0.176 Sum_probs=25.5
Q ss_pred CCCcEEEEEcCCC------------CCcceehHH--HHHHHHHCCCcEEEe
Q 030761 63 GEGKVLVIDGGGS------------MRCALVGGN--LGQLAHNNGWSGIVV 99 (172)
Q Consensus 63 ~~G~VlVid~~g~------------~~~a~~G~l--~a~~a~~~G~~G~Vi 99 (172)
-.|+|+|+-.+.. ...+.||.. -...|+++|+.|+|+
T Consensus 48 VkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~ 98 (157)
T cd04821 48 VKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALI 98 (157)
T ss_pred cCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEE
Confidence 4689998874321 134566653 667889999999975
No 40
>cd02135 Arsenite_oxidase Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a beta-proteobacterial strain is able to oxidize arsenite to arsenate.
Probab=30.61 E-value=41 Score=24.84 Aligned_cols=39 Identities=18% Similarity=0.159 Sum_probs=31.3
Q ss_pred CcceehHHHHHHHHHCCCcEEEecCccCCHHHHhc-CCCc
Q 030761 77 RCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEING-CGIG 115 (172)
Q Consensus 77 ~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~-~~~p 115 (172)
+++++.+.+..+|...|+....+.|...|-+++++ +++|
T Consensus 108 d~g~a~~nl~LaA~~~Glgs~~~~~~~~~~~~~~~~l~ip 147 (160)
T cd02135 108 AAGAAIQNLLLAAHALGFGAVWRTGWAAYDPAVREALGLA 147 (160)
T ss_pred HHHHHHHHHHHHHHHCCCCeEeecCCcccCHHHHHHhCCC
Confidence 46888999999999999999888877666666666 4666
No 41
>PF04199 Cyclase: Putative cyclase; InterPro: IPR007325 Proteins in this family are thought to be cyclase enzymes. They are found in proteins involved in antibiotic synthesis. However they are also found in organisms that do not make antibiotics pointing to a wider role for these proteins. The proteins contain a conserved motif HXGTHXDXPXH that is likely to form a part of the active site.; PDB: 2B0A_A 3KRV_A 1R61_A.
Probab=30.58 E-value=78 Score=24.05 Aligned_cols=67 Identities=16% Similarity=0.215 Sum_probs=39.5
Q ss_pred ceEEEEEEEEEeecC---c------HHHHHHHh----hCCCCcEEEEEcCC-CC-----C------cceehHHHHHHHHH
Q 030761 37 RSFSGPVVTLKVFED---N------VLVRELLE----TRGEGKVLVIDGGG-SM-----R------CALVGGNLGQLAHN 91 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d---~------~~~~~~~~----~~~~G~VlVid~~g-~~-----~------~a~~G~l~a~~a~~ 91 (172)
.+++|+++-+.+..+ . ..+.++++ .+++||+|++..+- +. . ...+..-.+.....
T Consensus 75 ~~~~g~~vviD~~~~~~~~~~~It~~dl~~~~~~~~~~i~~gdivlirTG~~~~~~~~~~~~y~~~~p~ls~eaa~~L~~ 154 (171)
T PF04199_consen 75 ERFIGPAVVIDVSHDKQPPGEAITAEDLEAAWEAQGVEIRPGDIVLIRTGWNDKRWEMGTEEYFNDFPGLSPEAAEWLAE 154 (171)
T ss_dssp CCCEEEEEEEETTT------SEE-HHHHTT------S---TTSEEEEE-CG-GGGT--TSGCGGCT--EE-HCCHHHHHH
T ss_pred hhccCcEEEEeccccccCCCceEcHHHHHhhhcccccccCCCcEEEEECCchhhhcccCCHhHccCCCcCCHHHHHHHHH
Confidence 469999999998761 1 12333433 57899999998874 11 1 23455567777779
Q ss_pred CCCcEEEecCcc
Q 030761 92 NGWSGIVVNGCI 103 (172)
Q Consensus 92 ~G~~G~VidG~v 103 (172)
+|++++-+|..-
T Consensus 155 ~~v~~vG~D~~s 166 (171)
T PF04199_consen 155 RGVKAVGIDTPS 166 (171)
T ss_dssp CT-SEEEESSSS
T ss_pred CCCCEEEECCCC
Confidence 999999888654
No 42
>PF03483 B3_4: B3/4 domain; InterPro: IPR005146 This entry represents the B3/B4 domain found in tRNA synthetase beta subunits as well as in some non-tRNA synthetase proteins. This domain has a 3-layer structure, and contains a beta-sandwich fold of unusual topology, and contains a putative tRNA-binding structural motif []. In Thermus thermophilus, both the catalytic alpha- and the non-catalytic beta-subunits comprise the characteristic fold of the class II active-site domains. The presence of an RNA-binding domain, similar to that of the U1A spliceosomal protein, in the beta-subunit of tRNA synthetase indicates structural relationships among different families of RNA-binding proteins. Aminoacyl-tRNA synthetases can catalyse editing reactions to correct errors produced during amino acid activation and tRNA esterification, in order to prevent the attachment of incorrect amino acids to tRNA. The B3/B4 domain of the beta subunit contains an editing site, which lies close to the active site on the alpha subunit []. Disruption of this site abolished tRNA editing, a process that is essential for faithful translation of the genetic code.; GO: 0003723 RNA binding, 0004826 phenylalanine-tRNA ligase activity; PDB: 3L4G_P 2CXI_B 3PCO_D 2AKW_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 1B70_B 2RHS_D ....
Probab=30.39 E-value=55 Score=25.41 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=17.7
Q ss_pred CeEEccCCEEEEcCCceEEec
Q 030761 147 GSFIRDGEWLYADSDGILVSK 167 (172)
Q Consensus 147 gv~V~pGD~v~aD~dGVvviP 167 (172)
...+.++++|+.|++|++.++
T Consensus 83 ~~~l~~~~~vi~D~~~~i~~~ 103 (174)
T PF03483_consen 83 EVELDEGDLVICDDNGIISIA 103 (174)
T ss_dssp EEEECTTCEEEECTTCEEEET
T ss_pred eeeccceEEEEEECCCCEeec
Confidence 466789999999999998665
No 43
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=29.89 E-value=1.1e+02 Score=22.93 Aligned_cols=33 Identities=21% Similarity=0.474 Sum_probs=25.6
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
-.|.|++|+.++ |. | ...+..|+++|++++|+-
T Consensus 58 ~~g~IvLV~RG~---C~-F-~~K~~nA~~aGA~avIv~ 90 (139)
T cd02132 58 LSGSIALVERGE---CA-F-TEKAKIAEAGGASALLII 90 (139)
T ss_pred cCCeEEEEECCC---CC-H-HHHHHHHHHcCCcEEEEE
Confidence 358999999543 33 3 567889999999999985
No 44
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=29.80 E-value=27 Score=26.31 Aligned_cols=24 Identities=25% Similarity=0.340 Sum_probs=21.0
Q ss_pred CcceehHHHHHHHHHCCCcEEEec
Q 030761 77 RCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 77 ~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.....|.+++..|+++|+.-+|+|
T Consensus 78 aA~~vG~lia~ra~~kgi~~vVfd 101 (125)
T COG0256 78 AAYLVGKLIAERALAKGIEEVVFD 101 (125)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEc
Confidence 457889999999999999999865
No 45
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=29.79 E-value=1.3e+02 Score=22.80 Aligned_cols=37 Identities=22% Similarity=0.259 Sum_probs=25.3
Q ss_pred CCCcEEEEEcCCCC-CcceehHHHHHHHHHCCCcEEEec
Q 030761 63 GEGKVLVIDGGGSM-RCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 63 ~~G~VlVid~~g~~-~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
-.|+|.+|+-++.. ....|.+-.. .|+++|++|+||-
T Consensus 55 ~~GkIaLI~RG~c~~~~~~f~~Kv~-~A~~aGA~avIIy 92 (139)
T cd04817 55 MAGKICLIERGGNSKSVYPEIDKVK-ACQNAGAIAAIVY 92 (139)
T ss_pred cCccEEEEECCCCCCCcccHHHHHH-HHHHCCCeEEEEE
Confidence 35999999975421 1112655554 4999999999994
No 46
>COG4297 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]
Probab=29.47 E-value=84 Score=24.38 Aligned_cols=27 Identities=15% Similarity=0.057 Sum_probs=22.3
Q ss_pred cceeceeEEEeeeccCCeEEccCCEEE
Q 030761 131 HGDKHVPVYIAGVYIAGSFIRDGEWLY 157 (172)
Q Consensus 131 ~~~~~vpV~ig~~~~~gv~V~pGD~v~ 157 (172)
+.+-+--+.||+.+++-+.|..||.++
T Consensus 70 vlrgqA~l~iGG~~G~el~v~~GDvll 96 (163)
T COG4297 70 VLRGQAGLQIGGADGQELEVGEGDVLL 96 (163)
T ss_pred EecceeEEEecCCCCceeeecCCCEEE
Confidence 345567889999999999999999764
No 47
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=28.78 E-value=1.4e+02 Score=19.46 Aligned_cols=40 Identities=23% Similarity=0.297 Sum_probs=28.5
Q ss_pred HHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEE
Q 030761 54 LVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGI 97 (172)
Q Consensus 54 ~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~ 97 (172)
..+++++++++|++|.+-.. ....-+.+...++..|..=.
T Consensus 15 ~~kkal~~l~~G~~l~V~~d----~~~s~~ni~~~~~~~g~~v~ 54 (69)
T cd03422 15 ATLEALPSLKPGEILEVISD----CPQSINNIPIDARNHGYKVL 54 (69)
T ss_pred HHHHHHHcCCCCCEEEEEec----CchHHHHHHHHHHHcCCEEE
Confidence 45689999999998776543 23455777788888776544
No 48
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=28.20 E-value=1.1e+02 Score=23.99 Aligned_cols=37 Identities=11% Similarity=0.200 Sum_probs=30.3
Q ss_pred HHHHHCCCcEEEecCccCCHHHHhcCCCcEEEcceec
Q 030761 87 QLAHNNGWSGIVVNGCIRDVDEINGCGIGVRALGSHP 123 (172)
Q Consensus 87 ~~a~~~G~~G~VidG~vRD~~~i~~~~~pvfa~g~~p 123 (172)
..+..+++.|+|+.+.-.+..++++.++||...+..+
T Consensus 49 ~~~~~~~~dgiii~~~~~~~~~~~~~gipvv~~~~~~ 85 (265)
T cd06291 49 EMLRQNQVDGIIAGTHNLGIEEYENIDLPIVSFDRYL 85 (265)
T ss_pred HHHHHcCCCEEEEecCCcCHHHHhcCCCCEEEEeCCC
Confidence 4578889999999887667778888899999888754
No 49
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=27.97 E-value=1.3e+02 Score=21.36 Aligned_cols=33 Identities=30% Similarity=0.354 Sum_probs=23.6
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
-.|+|++++.++ + -|. .....|++.|++|+|+-
T Consensus 39 v~GkIvL~~rg~---c-~f~-~k~~~a~~aGA~gvIi~ 71 (118)
T cd04818 39 FAGKIALIDRGT---C-NFT-VKVLNAQNAGAIAVIVA 71 (118)
T ss_pred CCCEEEEEECCC---C-CHH-HHHHHHHHCCCeEEEEE
Confidence 459999997532 2 333 45667888999999984
No 50
>TIGR01196 edd 6-phosphogluconate dehydratase. A close homolog, designated MocB (mannityl opine catabolism), is found in a mannopine catabolism region of a plasmid of Agrobacterium tumefaciens. However, it is not essential for mannopine catabolism, branches within the cluster of 6-phosphogluconate dehydratases (with a short branch length) in a tree rooted by the presence of other dehydyatases. It may represent an authentic 6-phosphogluconate dehydratase, redundant with the chromosomal copy shown to exist in plasmid-cured strains. This model includes mocB above the trusted cutoff, although the designation is somewhat tenuous.
Probab=26.67 E-value=1.5e+02 Score=28.12 Aligned_cols=62 Identities=16% Similarity=0.232 Sum_probs=38.8
Q ss_pred eEEEEEEEEEeecCcHHHHHHHh--hCCCCcEEEEEcCCCCCcceehHHHHH-----HHHHCCC-cEEEecCcc
Q 030761 38 SFSGPVVTLKVFEDNVLVRELLE--TRGEGKVLVIDGGGSMRCALVGGNLGQ-----LAHNNGW-SGIVVNGCI 103 (172)
Q Consensus 38 ~~~G~A~Tv~~~~d~~~~~~~~~--~~~~G~VlVid~~g~~~~a~~G~l~a~-----~a~~~G~-~G~VidG~v 103 (172)
++-|||+- +++.....++++ ++.+|+|+||-..|... .=+=|++.. ..+.+|. ..+|+||..
T Consensus 442 ~~~GpA~V---Fdsee~~~~ai~~g~i~~g~VvViR~eGPkg-~GMpEm~~~t~~l~~L~~~Gl~VALITDGRf 511 (601)
T TIGR01196 442 VIEAPAIV---FNDQAEVLAAFKAGELERDFVAVVRFQGPKA-NGMPELHKLTPPLGVLQDRGFKVALVTDGRM 511 (601)
T ss_pred EEEeeEEE---ECCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhccCCchhHHHHhCCCeEEEEccCcc
Confidence 34454432 334456667775 47899999998877543 334466643 3345565 789999953
No 51
>PRK05849 hypothetical protein; Provisional
Probab=26.51 E-value=5.2e+02 Score=25.36 Aligned_cols=90 Identities=14% Similarity=0.108 Sum_probs=50.0
Q ss_pred CceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccCC-HHHHhcCCC
Q 030761 36 CRSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIRD-VDEINGCGI 114 (172)
Q Consensus 36 ~~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vRD-~~~i~~~~~ 114 (172)
..++.|+++-++- + . +...+|+|||+.........+ ...+++|+|++-+-+- ...|
T Consensus 688 ~g~v~g~v~v~~~----~---~--~~~~~G~Ilv~~~tdPg~~~l---------f~~~i~g~Vte~Gg~~SH~AI----- 744 (783)
T PRK05849 688 QKRVEATVADLDN----D---N--DDDLEGKIVCIENADPGYDWL---------FTKGIAGLITCYGGANSHMAI----- 744 (783)
T ss_pred CCEEEEEEEEecC----h---h--hcCCCCCEEEeCCCCccchHH---------HhhheeEEEEcCCCcccHHHH-----
Confidence 3578888876641 1 1 345689999998654322222 2346778887643221 1111
Q ss_pred cEEEcceecCCCCCCccceeceeEEEeeeccCCe---EEccCCEEEEcC-CceEEe
Q 030761 115 GVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGS---FIRDGEWLYADS-DGILVS 166 (172)
Q Consensus 115 pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv---~V~pGD~v~aD~-dGVvvi 166 (172)
.-.+.++|..+|.. +. .++.||.|.-|. .|.|.+
T Consensus 745 ---------------~ARe~gIPavvg~~---~~~~~~~~~g~~v~vDg~~G~v~i 782 (783)
T PRK05849 745 ---------------RAAELGLPAVIGVG---EELFEKWLKAKRILLDCASQRIEI 782 (783)
T ss_pred ---------------HHHHcCCCEEEccC---cchhhhccCCCEEEEECCCCEEEe
Confidence 12355555555511 32 467888888887 566654
No 52
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=25.61 E-value=1.4e+02 Score=21.83 Aligned_cols=32 Identities=22% Similarity=0.486 Sum_probs=24.2
Q ss_pred CCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 64 EGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 64 ~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.|.|++++.++ | -|.+- +..|+++|++++|+-
T Consensus 34 ~g~I~Lv~RG~---C-~F~~K-~~~Aq~aGA~avII~ 65 (118)
T cd02127 34 NGNIALIERGG---C-SFLTK-AINAQKAGALAVIIT 65 (118)
T ss_pred CCeEEEEECCC---C-CHHHH-HHHHHHCCCcEEEEE
Confidence 58999999643 3 46664 566999999999994
No 53
>TIGR01740 pyrF orotidine 5'-phosphate decarboxylase, subfamily 1. This model represents orotidine 5'-monophosphate decarboxylase, the PyrF protein of pyrimidine nucleotide biosynthesis. In many eukaryotes, the region hit by this model is part of a multifunctional protein.
Probab=24.92 E-value=3.3e+02 Score=21.59 Aligned_cols=81 Identities=17% Similarity=0.138 Sum_probs=44.8
Q ss_pred EEEEEEeecCcHHHHHHHhhCCC--CcEE-EEEcCCCCCcceeh----HHH---HHHHHHCCCcEEEecCccCCHHHHhc
Q 030761 42 PVVTLKVFEDNVLVRELLETRGE--GKVL-VIDGGGSMRCALVG----GNL---GQLAHNNGWSGIVVNGCIRDVDEING 111 (172)
Q Consensus 42 ~A~Tv~~~~d~~~~~~~~~~~~~--G~Vl-Vid~~g~~~~a~~G----~l~---a~~a~~~G~~G~VidG~vRD~~~i~~ 111 (172)
.++||........++.+++.... ..++ |....+. ...-|+ +.. +..++..|..|.|.. -.++.++++
T Consensus 78 d~vTvh~~~g~~~l~~~~~~~~~~~~~v~~v~~lss~-~~~~~~~~~~~~v~~~a~~~~~~g~~g~v~~--~~~~~~ir~ 154 (213)
T TIGR01740 78 DMVNVHGVAGSESVEAAKEAASEGGRGLLAVTELTSM-GSLDYGEDTMEKVLEYAKEAKAFGLDGPVCS--AEEAKEIRK 154 (213)
T ss_pred CEEEEcCCCCHHHHHHHHHHhhcCCCeEEEEEcCCCC-ChhhhCcCHHHHHHHHHHHhhhcCCeEEEeC--HHHHHHHHH
Confidence 56666665555556666654332 2344 4434332 221134 222 344455677788754 244566655
Q ss_pred C--CCcEEEcceecCC
Q 030761 112 C--GIGVRALGSHPLK 125 (172)
Q Consensus 112 ~--~~pvfa~g~~p~~ 125 (172)
. +|+.++-|..+.+
T Consensus 155 ~~~~~~~vtPGI~~~g 170 (213)
T TIGR01740 155 FTGDFLILTPGIRLQS 170 (213)
T ss_pred hcCCceEEeCCcCCCC
Confidence 4 7999999998764
No 54
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=24.76 E-value=1.5e+02 Score=21.99 Aligned_cols=33 Identities=27% Similarity=0.477 Sum_probs=24.6
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
-.|.|++|+.++ | -|.+- +..|++.|++|+||-
T Consensus 43 l~gkIaLV~RG~---C-sF~~K-~~~Aq~aGA~aVII~ 75 (120)
T cd02129 43 LKGKAVVVMRGN---C-TFYEK-ARLAQSLGAEGLLIV 75 (120)
T ss_pred cCCeEEEEECCC---c-CHHHH-HHHHHHCCCCEEEEE
Confidence 359999999653 3 35555 455999999999983
No 55
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=24.48 E-value=1.4e+02 Score=21.74 Aligned_cols=36 Identities=22% Similarity=0.099 Sum_probs=26.1
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecC
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNG 101 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG 101 (172)
-.|+|++++.+... ..+ ......|+++|++|+|+-.
T Consensus 43 v~GkIvlv~~g~~~--~~~-~~k~~~A~~~GA~avi~~~ 78 (127)
T cd04819 43 LEGKIAVVKRDDPD--VDR-KEKYAKAVAAGAAAFVVVN 78 (127)
T ss_pred CCCeEEEEEcCCCc--hhH-HHHHHHHHHCCCEEEEEEe
Confidence 57999999875431 122 3457889999999999974
No 56
>PRK14529 adenylate kinase; Provisional
Probab=24.12 E-value=81 Score=25.79 Aligned_cols=33 Identities=12% Similarity=0.153 Sum_probs=25.1
Q ss_pred eehHHHHHHHHHCCCcEEEecCccCCHHHHhcC
Q 030761 80 LVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGC 112 (172)
Q Consensus 80 ~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~ 112 (172)
+.=+++..+.+.....|+|+||.=|..++...+
T Consensus 63 i~~~lv~~~l~~~~~~g~iLDGfPRt~~Qa~~l 95 (223)
T PRK14529 63 ITIPMILETLKQDGKNGWLLDGFPRNKVQAEKL 95 (223)
T ss_pred HHHHHHHHHHhccCCCcEEEeCCCCCHHHHHHH
Confidence 444556666665568899999999999998854
No 57
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=23.15 E-value=1.6e+02 Score=21.46 Aligned_cols=32 Identities=28% Similarity=0.462 Sum_probs=23.9
Q ss_pred CCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 64 EGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 64 ~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.|.|++|+.++ | -|.+- +..|+++|++++|+-
T Consensus 39 ~gkIvLV~RG~---C-sF~~K-~~nAq~aGA~avII~ 70 (117)
T cd04813 39 DGKVALVLRGG---C-GFLDK-VMWAQRRGAKAVIVG 70 (117)
T ss_pred CCeEEEEECCC---C-CHHHH-HHHHHHCCCcEEEEE
Confidence 68899998542 3 36664 556999999999994
No 58
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce
Probab=23.08 E-value=1.5e+02 Score=22.54 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=25.1
Q ss_pred CCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 62 RGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 62 ~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
...|.|++++.++ +.|.+- +..|+++|++|+|+-
T Consensus 65 ~~~g~IvLV~RG~----CtF~~K-v~nAq~aGA~avII~ 98 (153)
T cd02123 65 ASGSFIVLIRRGN----CSFETK-VRNAQRAGYKAAIVY 98 (153)
T ss_pred cCCCeEEEEECCC----CCHHHH-HHHHHHCCCCEEEEE
Confidence 3458899998643 357775 566889999999983
No 59
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=22.68 E-value=1.6e+02 Score=21.73 Aligned_cols=32 Identities=22% Similarity=0.264 Sum_probs=23.0
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEe
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVV 99 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vi 99 (172)
-.|.|++++.++ | -|.+ ....|+++|++|+|+
T Consensus 46 v~GkIvL~~rg~---c-~~~~-K~~~a~~aGA~gvIi 77 (143)
T cd02133 46 VKGKIALIQRGE---I-TFVE-KIANAKAAGAVGVII 77 (143)
T ss_pred ccceEEEEECCC---C-CHHH-HHHHHHHCCCeEEEE
Confidence 359999998542 2 2333 466688899999999
No 60
>cd00571 UreE UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-terminal region of UreE contains a histidine rich nickel binding site.
Probab=22.38 E-value=85 Score=23.53 Aligned_cols=33 Identities=27% Similarity=0.478 Sum_probs=22.6
Q ss_pred eeceeEEEeeeccCCeEEccCCEEEEcCCceEEec
Q 030761 133 DKHVPVYIAGVYIAGSFIRDGEWLYADSDGILVSK 167 (172)
Q Consensus 133 ~~~vpV~ig~~~~~gv~V~pGD~v~aD~dGVvviP 167 (172)
+-+..+.+. -..|...++||+++.|++-+++|-
T Consensus 40 ~~G~ei~i~--L~r~~~L~dGdvL~~d~~~~i~V~ 72 (136)
T cd00571 40 DHGEELGIR--LPRGQVLRDGDVLFLDDGRLVVVR 72 (136)
T ss_pred CCCCEEEEE--CCCCCcCCCCCEEEeCCCCEEEEE
Confidence 334444444 223678999999999998777653
No 61
>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl
Probab=22.16 E-value=4e+02 Score=21.51 Aligned_cols=61 Identities=20% Similarity=0.176 Sum_probs=38.2
Q ss_pred CcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcC
Q 030761 51 DNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGC 112 (172)
Q Consensus 51 d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~ 112 (172)
|...+.+.+.+.+...+.|+|-.+.....--=+++...+..-+ .-+-++|.+|+.++++++
T Consensus 36 dp~~~a~~~~~~g~~~l~i~DLd~~~~~~~n~~~i~~i~~~~~-~~v~vgGGir~~edv~~~ 96 (233)
T cd04723 36 DPLDVARAYKELGFRGLYIADLDAIMGRGDNDEAIRELAAAWP-LGLWVDGGIRSLENAQEW 96 (233)
T ss_pred CHHHHHHHHHHCCCCEEEEEeCccccCCCccHHHHHHHHHhCC-CCEEEecCcCCHHHHHHH
Confidence 3345556666678888999998654222222233333333333 358899999999987763
No 62
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=22.01 E-value=1.6e+02 Score=21.82 Aligned_cols=32 Identities=16% Similarity=0.329 Sum_probs=24.0
Q ss_pred CCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 64 EGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 64 ~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
.|.|++|+.++ | -|.+ ....|+++|++++|+.
T Consensus 55 ~g~IaLv~rg~---c-~f~~-K~~nA~~aGA~aviiy 86 (129)
T cd02124 55 SGYIVLVRRGT---C-TFAT-KAANAAAKGAKYVLIY 86 (129)
T ss_pred cCeEEEEECCC---C-CHHH-HHHHHHHcCCcEEEEE
Confidence 58899999643 3 3544 5677999999999985
No 63
>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu
Probab=21.89 E-value=1.7e+02 Score=20.76 Aligned_cols=33 Identities=24% Similarity=0.447 Sum_probs=22.6
Q ss_pred CCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEe
Q 030761 63 GEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVV 99 (172)
Q Consensus 63 ~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vi 99 (172)
-.|+|++++.+. +..+-+ .+..+++.|+.|+|+
T Consensus 50 v~GkIVlc~~~~---~~~~~~-k~~~~~~~GA~gvI~ 82 (126)
T cd02120 50 VKGKIVLCDRGG---NTSRVA-KGDAVKAAGGAGMIL 82 (126)
T ss_pred ccccEEEEeCCC---CccHHH-HHHHHHHcCCcEEEE
Confidence 449999997643 212223 355688899999999
No 64
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=21.89 E-value=53 Score=22.75 Aligned_cols=10 Identities=30% Similarity=0.471 Sum_probs=6.7
Q ss_pred EEccCCEEEE
Q 030761 149 FIRDGEWLYA 158 (172)
Q Consensus 149 ~V~pGD~v~a 158 (172)
-++|||+|-|
T Consensus 68 ~FrpGDIVrA 77 (82)
T PF10447_consen 68 CFRPGDIVRA 77 (82)
T ss_dssp T--SSSEEEE
T ss_pred ccCCCCEEEE
Confidence 4689999987
No 65
>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2). This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=21.72 E-value=3.6e+02 Score=20.98 Aligned_cols=66 Identities=15% Similarity=0.188 Sum_probs=42.1
Q ss_pred ccceecCCCceEEEEEEEEEee--cCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEec
Q 030761 28 PVFQIYGQCRSFSGPVVTLKVF--EDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVN 100 (172)
Q Consensus 28 p~~~~~~~~~~~~G~A~Tv~~~--~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~Vid 100 (172)
|-|..|-+...+-|..+=+.+- +|-..+.+.+ --.|+|.++--++ .|=+.....|+++|+.|+||.
T Consensus 4 p~f~aYS~sG~Vtg~~VYvNyG~~eDf~~L~~~V--~v~GkIvi~RyG~-----~~RG~Kv~~A~~~GA~GviIY 71 (153)
T cd02131 4 YSYAAYSAKGTLQAEVVDVQYGSVEDLRRIRDNM--NVTNQIALLKLGQ-----APLLYKLSLLEEAGFGGVLLY 71 (153)
T ss_pred CccceeCCCCceEEEEEEecCCCHHHHHHHHhCC--CccceEEEEeccC-----cchHHHHHHHHHCCCeEEEEe
Confidence 3455666666677777777654 2323333322 2468888877653 234557788899999999993
No 66
>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated
Probab=21.50 E-value=3.5e+02 Score=21.30 Aligned_cols=19 Identities=16% Similarity=0.226 Sum_probs=8.7
Q ss_pred HHHHHHCCCcEEEecCccC
Q 030761 86 GQLAHNNGWSGIVVNGCIR 104 (172)
Q Consensus 86 a~~a~~~G~~G~VidG~vR 104 (172)
+..+...|+..+++...-|
T Consensus 152 ~~~~~~~g~~~ii~~~~~~ 170 (233)
T PRK00748 152 AKRFEDAGVKAIIYTDISR 170 (233)
T ss_pred HHHHHhcCCCEEEEeeecC
Confidence 4444444555555444433
No 67
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=21.48 E-value=46 Score=19.66 Aligned_cols=12 Identities=25% Similarity=0.387 Sum_probs=7.1
Q ss_pred CcEEEecCccCC
Q 030761 94 WSGIVVNGCIRD 105 (172)
Q Consensus 94 ~~G~VidG~vRD 105 (172)
..=+||||.++|
T Consensus 23 pG~ViING~C~d 34 (36)
T PF08194_consen 23 PGNVIINGKCID 34 (36)
T ss_pred CCeEEECceeee
Confidence 334566776665
No 68
>TIGR03553 F420_FbiB_CTERM F420 biosynthesis protein FbiB, C-terminal domain. Coenzyme F420 differs between the Archaea and the Actinobacteria, where the numbers of glutamate residues attached are 2 (Archaea) or 5-6 (Mycobacterium). The enzyme in the Archaea is homologous to the N-terminal domain of FbiB from Mycobacterium bovis, and is responsible for glutamate ligation. Therefore it seems likely that the C-terminal domain of FbiB, modeled by this alignment, is involved in additional glutamate ligation.
Probab=21.20 E-value=98 Score=23.83 Aligned_cols=38 Identities=16% Similarity=0.058 Sum_probs=31.3
Q ss_pred cceehHHHHHHHHHCCCcEEEecCccCCHHHHhc-CCCc
Q 030761 78 CALVGGNLGQLAHNNGWSGIVVNGCIRDVDEING-CGIG 115 (172)
Q Consensus 78 ~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~-~~~p 115 (172)
+++.-+.+..+|...|...+.+.|...|.+++++ +++|
T Consensus 123 ~g~a~qnl~LaA~~~Glgt~~~~~~~~~~~~v~~~l~lp 161 (194)
T TIGR03553 123 VGAAVQNLLVALAVEGLGSCWVGSTIFAADVVRAELDLP 161 (194)
T ss_pred HHHHHHHHHHHHHHcCCCeEEecCcccCHHHHHHHhCcC
Confidence 3556677899999999999999887788888888 4776
No 69
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=21.02 E-value=4.5e+02 Score=21.25 Aligned_cols=61 Identities=18% Similarity=0.199 Sum_probs=38.7
Q ss_pred CcHHHHHHHhhCCCCcEEEEEcCCCC-CcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcC
Q 030761 51 DNVLVRELLETRGEGKVLVIDGGGSM-RCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGC 112 (172)
Q Consensus 51 d~~~~~~~~~~~~~G~VlVid~~g~~-~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~ 112 (172)
|...+.+.++..+...+.++|..... ....-=+++....++-... ++++|.+|+.++++++
T Consensus 31 d~~~~a~~~~~~G~~~i~i~dl~~~~~~~~~~~~~i~~i~~~~~ip-v~~~GGi~s~~~~~~~ 92 (253)
T PRK02083 31 DPVELAKRYNEEGADELVFLDITASSEGRDTMLDVVERVAEQVFIP-LTVGGGIRSVEDARRL 92 (253)
T ss_pred CHHHHHHHHHHcCCCEEEEEeCCcccccCcchHHHHHHHHHhCCCC-EEeeCCCCCHHHHHHH
Confidence 44466677778888999999877532 2222222333333443333 7999999999988773
No 70
>PRK14112 urease accessory protein UreE; Provisional
Probab=21.02 E-value=94 Score=23.98 Aligned_cols=32 Identities=25% Similarity=0.345 Sum_probs=22.6
Q ss_pred eceeEEEeeeccCCeEEccCCEEEEcCCceEEec
Q 030761 134 KHVPVYIAGVYIAGSFIRDGEWLYADSDGILVSK 167 (172)
Q Consensus 134 ~~vpV~ig~~~~~gv~V~pGD~v~aD~dGVvviP 167 (172)
-+..+.+. -..|...+.||+++.|+.-+|+|-
T Consensus 43 ~G~ei~l~--L~r~~~L~dGDvL~~ddg~~I~V~ 74 (149)
T PRK14112 43 QNVEYGIR--LEEDKKLMDGDILYKDDYKLVVIR 74 (149)
T ss_pred CCcEEEEE--CCCCCccCCCCEEEeCCCCEEEEE
Confidence 34444443 223668999999999999888764
No 71
>TIGR01828 pyru_phos_dikin pyruvate, phosphate dikinase. This model represents pyruvate,phosphate dikinase, also called pyruvate,orthophosphate dikinase. It is similar in sequence to other PEP-utilizing enzymes.
Probab=20.96 E-value=7.2e+02 Score=24.65 Aligned_cols=104 Identities=14% Similarity=0.131 Sum_probs=59.5
Q ss_pred ceEEEEEEEEEeecCcHHHHHHHhhCCCCcEEEEEcCCCCCcceehHHHHHHHHHCCCcEEEecCcc-CCHHH--HhcCC
Q 030761 37 RSFSGPVVTLKVFEDNVLVRELLETRGEGKVLVIDGGGSMRCALVGGNLGQLAHNNGWSGIVVNGCI-RDVDE--INGCG 113 (172)
Q Consensus 37 ~~~~G~A~Tv~~~~d~~~~~~~~~~~~~G~VlVid~~g~~~~a~~G~l~a~~a~~~G~~G~VidG~v-RD~~~--i~~~~ 113 (172)
...+|+++.. .+ -.+.....+++.|||...-...+... ...+.|+|+.-.- .-... -|+++
T Consensus 397 G~a~G~v~~~---~~---~a~~~~~~~~~~ILV~~~t~P~d~~~----------~~~a~Givt~~GG~tSHaAivAR~lg 460 (856)
T TIGR01828 397 GAATGKIVFS---AE---DAVELAEKGKKVILVREETSPEDIEG----------MHVAEGILTARGGMTSHAAVVARGMG 460 (856)
T ss_pred CeEEEEEEEc---hH---HHHHHhhcCCCEEEEECCCCHHHHhh----------hhhheEEEEccCCCcchHHHHHHHcC
Confidence 4578887543 11 11222245677888876443222111 1146888887543 33333 35567
Q ss_pred CcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEEcC-CceEEec
Q 030761 114 IGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYADS-DGILVSK 167 (172)
Q Consensus 114 ~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~aD~-dGVvviP 167 (172)
.|.-.. .....+-..+..+.++ +..++.||+|.-|. .|.|..-
T Consensus 461 iP~VvG------~~~~~id~~~~~~~~~-----~~~l~~Gd~VtvDg~~G~V~~g 504 (856)
T TIGR01828 461 KCCVSG------CEELKINEEAKTFTIG-----GRVFHEGDIISIDGSTGEIYLG 504 (856)
T ss_pred CCEEEc------ccccccccccceeeeC-----CeEecCCCEEEEECCCCEEEEC
Confidence 777422 1111233444567778 99999999999995 7888754
No 72
>PRK10765 nitroreductase A; Provisional
Probab=20.89 E-value=90 Score=25.47 Aligned_cols=39 Identities=15% Similarity=0.279 Sum_probs=29.7
Q ss_pred CcceehHHHHHHHHHCCCcEEEecCccCCHHHHhcC-CCc
Q 030761 77 RCALVGGNLGQLAHNNGWSGIVVNGCIRDVDEINGC-GIG 115 (172)
Q Consensus 77 ~~a~~G~l~a~~a~~~G~~G~VidG~vRD~~~i~~~-~~p 115 (172)
++++....+..+|...|...+.+-|.-.|.++++++ ++|
T Consensus 107 Dagiaaqnl~laA~slGLGs~~ig~~~~~~~~v~~~L~LP 146 (240)
T PRK10765 107 DTAIMAQNALLAAESLGLGGVYIGGLRNNIEAVTELLKLP 146 (240)
T ss_pred HHHHHHHHHHHHHHHcCCCEEeeCccccCHHHHHHHhCcC
Confidence 457788999999999999999887644466666663 544
No 73
>COG3365 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.85 E-value=1e+02 Score=22.75 Aligned_cols=22 Identities=36% Similarity=0.693 Sum_probs=18.1
Q ss_pred HHHHHHhhCCCCcEEEEEcCCC
Q 030761 54 LVRELLETRGEGKVLVIDGGGS 75 (172)
Q Consensus 54 ~~~~~~~~~~~G~VlVid~~g~ 75 (172)
.++-.+|.++.|+|+|.+++=+
T Consensus 22 kvr~Iid~vr~G~IlVLE~gL~ 43 (118)
T COG3365 22 KVRYIIDKVREGDILVLEGGLT 43 (118)
T ss_pred HHHHHHHhccCCcEEEEeCCCC
Confidence 5567889999999999997643
No 74
>KOG3079 consensus Uridylate kinase/adenylate kinase [Nucleotide transport and metabolism]
Probab=20.33 E-value=1.4e+02 Score=24.13 Aligned_cols=32 Identities=22% Similarity=0.362 Sum_probs=25.4
Q ss_pred ehHHHHHHHHHCCC-cEEEecCccCCHHHHhcC
Q 030761 81 VGGNLGQLAHNNGW-SGIVVNGCIRDVDEINGC 112 (172)
Q Consensus 81 ~G~l~a~~a~~~G~-~G~VidG~vRD~~~i~~~ 112 (172)
.=+++-+++.+++- .|++|||+=|-.++....
T Consensus 73 ~~~LL~~am~~~~~~~~fLIDGyPR~~~q~~~f 105 (195)
T KOG3079|consen 73 TLSLLEEAMRSSGDSNGFLIDGYPRNVDQLVEF 105 (195)
T ss_pred HHHHHHHHHHhcCCCCeEEecCCCCChHHHHHH
Confidence 34677788887775 669999999999988753
No 75
>PF11811 DUF3331: Domain of unknown function (DUF3331); InterPro: IPR021769 This family of proteins are functionally uncharacterised. This family is only found in bacteria. Proteins in this family vary in length from 96 to 160 amino acids.
Probab=20.20 E-value=1.3e+02 Score=21.66 Aligned_cols=33 Identities=21% Similarity=0.237 Sum_probs=21.6
Q ss_pred cCCCcEEEcceecCCCCCCccceeceeEEEeeeccCCeEEccCCEEEE
Q 030761 111 GCGIGVRALGSHPLKSNKKGHGDKHVPVYIAGVYIAGSFIRDGEWLYA 158 (172)
Q Consensus 111 ~~~~pvfa~g~~p~~~~~~~~~~~~vpV~ig~~~~~gv~V~pGD~v~a 158 (172)
..+.++|.++..-..+ -..+- |..|++||.||-
T Consensus 40 ~YgeQ~Wr~~~AR~~G----------~CaLS-----G~~I~rGD~Vyr 72 (96)
T PF11811_consen 40 HYGEQRWRLARARRSG----------VCALS-----GRPIRRGDAVYR 72 (96)
T ss_pred CcCCceEEEEecCcCC----------EEeCC-----CCEecCCCceEC
Confidence 3467788776654322 23345 889999999885
Done!