Query 031057
Match_columns 166
No_of_seqs 145 out of 1047
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 08:35:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031057.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031057hhsearch_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 1.2E-53 2.5E-58 331.1 18.3 158 3-165 2-159 (161)
2 PRK09372 ribonuclease activity 100.0 3.8E-51 8.3E-56 316.9 17.4 158 3-165 2-159 (159)
3 PRK12487 ribonuclease activity 100.0 3.6E-51 7.8E-56 317.8 17.3 158 3-165 2-159 (163)
4 TIGR01935 NOT-MenG RraA famliy 100.0 6.7E-50 1.5E-54 307.2 17.1 150 6-160 1-150 (150)
5 PRK06201 hypothetical protein; 100.0 6.9E-49 1.5E-53 318.6 16.1 157 2-164 23-180 (221)
6 PRK09262 hypothetical protein; 100.0 2.7E-48 6E-53 315.8 16.8 157 2-164 21-178 (225)
7 TIGR02798 ligK_PcmE 4-carboxy- 100.0 2.6E-48 5.5E-53 315.3 16.4 157 2-164 19-176 (222)
8 COG0684 MenG Demethylmenaquino 100.0 1.7E-48 3.8E-53 312.7 13.7 159 6-164 13-171 (210)
9 PF03737 Methyltransf_6: Demet 100.0 5.6E-48 1.2E-52 297.8 15.8 152 3-159 2-154 (154)
10 PRK08245 hypothetical protein; 100.0 1.7E-47 3.6E-52 313.9 15.0 161 1-164 14-189 (240)
11 PRK07028 bifunctional hexulose 100.0 2E-44 4.3E-49 316.1 16.0 155 2-164 234-389 (430)
12 PRK12764 hypothetical protein; 100.0 1.9E-43 4.2E-48 315.3 15.7 159 2-164 276-447 (500)
13 PF02225 PA: PA domain; Inter 62.4 19 0.00042 24.4 4.6 53 59-116 29-87 (101)
14 PRK12448 dihydroxy-acid dehydr 60.9 27 0.00058 32.9 6.3 101 36-156 445-552 (615)
15 PRK13016 dihydroxy-acid dehydr 60.0 32 0.0007 32.1 6.7 100 36-156 403-513 (577)
16 cd04814 PA_M28_1 PA_M28_1: Pro 56.0 26 0.00056 26.7 4.6 42 62-103 46-100 (142)
17 cd02121 PA_GCPII_like PA_GCPII 53.3 50 0.0011 27.0 6.1 75 26-105 33-108 (220)
18 cd02126 PA_EDEM3_like PA_EDEM3 53.2 27 0.00058 25.6 4.2 32 63-99 40-71 (126)
19 cd02128 PA_TfR PA_TfR: Proteas 49.5 60 0.0013 25.8 5.9 64 29-99 20-86 (183)
20 PRK00911 dihydroxy-acid dehydr 47.0 57 0.0012 30.3 6.1 98 38-156 397-502 (552)
21 cd04820 PA_M28_1_1 PA_M28_1_1: 46.3 46 0.001 25.1 4.6 83 36-118 20-117 (137)
22 PF00920 ILVD_EDD: Dehydratase 46.1 22 0.00047 32.8 3.2 64 36-102 369-439 (521)
23 TIGR00110 ilvD dihydroxy-acid 45.8 55 0.0012 30.3 5.8 100 36-156 380-487 (535)
24 KOG0025 Zn2+-binding dehydroge 45.7 9.6 0.00021 33.0 0.9 59 55-121 153-211 (354)
25 COG3010 NanE Putative N-acetyl 45.4 77 0.0017 26.1 5.9 64 53-117 5-71 (229)
26 cd04822 PA_M28_1_3 PA_M28_1_3: 44.2 49 0.0011 25.4 4.5 69 37-105 19-102 (151)
27 PRK06131 dihydroxy-acid dehydr 42.7 82 0.0018 29.5 6.4 100 36-156 398-508 (571)
28 cd04821 PA_M28_1_2 PA_M28_1_2: 41.5 58 0.0013 25.1 4.6 37 62-98 48-98 (157)
29 PRK13017 dihydroxy-acid dehydr 41.0 1E+02 0.0022 29.1 6.7 99 37-156 420-529 (596)
30 PRK08211 putative dehydratase; 40.7 71 0.0015 30.3 5.7 62 36-101 467-535 (655)
31 TIGR03432 yjhG_yagF probable d 38.2 77 0.0017 30.0 5.6 99 36-156 461-567 (640)
32 cd02130 PA_ScAPY_like PA_ScAPY 37.9 68 0.0015 23.0 4.3 33 62-99 43-75 (122)
33 cd00538 PA PA: Protease-associ 37.1 64 0.0014 22.5 4.0 32 63-99 46-77 (126)
34 cd02132 PA_GO-like PA_GO-like: 37.1 67 0.0015 23.9 4.2 33 62-99 58-90 (139)
35 PF04131 NanE: Putative N-acet 35.9 37 0.00081 27.3 2.8 35 83-118 3-38 (192)
36 TIGR01828 pyru_phos_dikin pyru 35.7 3.3E+02 0.0071 26.8 9.6 103 36-160 397-503 (856)
37 cd04817 PA_VapT_like PA_VapT_l 35.5 83 0.0018 23.8 4.5 37 62-99 55-92 (139)
38 cd06291 PBP1_Qymf_like Ligand 35.1 69 0.0015 25.0 4.3 37 86-122 49-85 (265)
39 KOG2666 UDP-glucose/GDP-mannos 34.4 30 0.00065 30.5 2.1 36 86-121 433-469 (481)
40 cd02135 Arsenite_oxidase Nitro 33.6 28 0.00061 25.5 1.7 39 76-114 108-147 (160)
41 cd04816 PA_SaNapH_like PA_SaNa 33.5 77 0.0017 22.7 4.0 32 63-99 43-74 (122)
42 cd04818 PA_subtilisin_1 PA_sub 32.6 90 0.002 22.1 4.2 33 62-99 39-71 (118)
43 TIGR01740 pyrF orotidine 5'-ph 32.5 1.5E+02 0.0032 23.5 5.8 81 41-124 78-170 (213)
44 cd02127 PA_hPAP21_like PA_hPAP 31.2 82 0.0018 22.9 3.8 32 63-99 34-65 (118)
45 cd04819 PA_2 PA_2: Protease-as 30.9 97 0.0021 22.5 4.2 36 62-100 43-78 (127)
46 PRK08296 hypothetical protein; 29.9 91 0.002 29.3 4.7 89 36-160 508-601 (603)
47 cd04813 PA_1 PA_1: Protease-as 28.8 95 0.002 22.5 3.8 32 63-99 39-70 (117)
48 cd03422 YedF YedF is a bacteri 28.6 1.2E+02 0.0025 19.7 3.9 40 53-96 15-54 (69)
49 PRK09054 phosphogluconate dehy 28.5 1.4E+02 0.0031 28.1 5.7 99 36-155 442-549 (603)
50 cd02131 PA_hNAALADL2_like PA_h 28.2 2.2E+02 0.0048 22.0 5.8 64 29-99 6-71 (153)
51 cd02123 PA_C_RZF_like PA_C-RZF 27.7 96 0.0021 23.5 3.8 33 62-99 66-98 (153)
52 cd02129 PA_hSPPL_like PA_hSPPL 26.9 1.1E+02 0.0024 22.5 3.9 32 63-99 44-75 (120)
53 cd02133 PA_C5a_like PA_C5a_lik 26.8 1.1E+02 0.0024 22.5 4.0 31 63-98 47-77 (143)
54 COG4821 Uncharacterized protei 26.6 1.4E+02 0.003 24.7 4.6 38 58-98 99-137 (243)
55 PRK10765 nitroreductase A; Pro 26.2 50 0.0011 26.8 2.1 39 76-114 107-146 (240)
56 PF13580 SIS_2: SIS domain; PD 25.6 1.4E+02 0.0031 21.8 4.3 40 55-97 93-135 (138)
57 PF03483 B3_4: B3/4 domain; I 25.3 91 0.002 24.0 3.3 20 142-161 84-103 (174)
58 TIGR03553 F420_FbiB_CTERM F420 24.5 64 0.0014 24.7 2.3 38 77-114 123-161 (194)
59 PF10447 EXOSC1: Exosome compo 22.8 50 0.0011 22.8 1.3 11 142-152 67-77 (82)
60 PRK05849 hypothetical protein; 22.5 5.2E+02 0.011 25.2 8.4 86 35-160 688-782 (783)
61 PF13242 Hydrolase_like: HAD-h 22.4 2.2E+02 0.0048 18.2 4.9 53 50-110 6-60 (75)
62 cd02124 PA_PoS1_like PA_PoS1_l 22.4 1.6E+02 0.0036 21.6 4.1 32 63-99 55-86 (129)
63 COG0256 RplR Ribosomal protein 22.3 43 0.00093 25.1 0.9 24 76-99 78-101 (125)
64 cd06295 PBP1_CelR Ligand bindi 22.1 2E+02 0.0043 22.6 4.8 38 84-121 56-96 (275)
65 cd02146 NfsA_FRP This family c 22.0 68 0.0015 25.6 2.1 39 76-114 109-148 (229)
66 cd02120 PA_subtilisin_like PA_ 22.0 1.7E+02 0.0038 20.5 4.1 34 62-99 50-83 (126)
67 PF04199 Cyclase: Putative cyc 21.7 1.8E+02 0.004 21.8 4.4 69 36-104 75-168 (171)
68 cd02992 PDI_a_QSOX PDIa family 21.4 43 0.00094 23.7 0.7 20 91-110 91-110 (114)
69 PF14685 Tricorn_PDZ: Tricorn 21.3 57 0.0012 22.7 1.3 27 132-159 28-54 (88)
70 cd06299 PBP1_LacI_like_13 Liga 21.1 2E+02 0.0044 22.2 4.7 37 85-121 48-87 (265)
71 COG5448 Uncharacterized conser 21.0 1.7E+02 0.0037 23.0 4.0 31 133-163 108-138 (184)
72 cd00845 MPP_UshA_N_like Escher 20.8 4.3E+02 0.0092 20.8 9.4 57 64-122 37-106 (252)
73 PRK10828 putative oxidoreducta 20.8 66 0.0014 24.7 1.7 39 76-114 110-149 (183)
74 cd02125 PA_VSR PA_VSR: Proteas 20.4 1.6E+02 0.0035 21.6 3.7 33 63-100 42-74 (127)
75 PRK05865 hypothetical protein; 20.2 3.1E+02 0.0068 27.0 6.4 87 36-162 744-838 (854)
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=1.2e-53 Score=331.14 Aligned_cols=158 Identities=43% Similarity=0.791 Sum_probs=152.8
Q ss_pred CCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceech
Q 031057 3 LVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGG 82 (166)
Q Consensus 3 ~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~ 82 (166)
++.|++|||++.+ .++.++|.|++||+.++++|+|+||++.+||..++++|++++||||||||++++.++|+|||
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 5899999999988 47899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEecC
Q 031057 83 NPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILISRA 162 (166)
Q Consensus 83 ~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvviP~ 162 (166)
+++++|++||++|+|+||++||++||++++|||||++++|.++.+...+++|+||+|+|++|+|||+|+||.|||+|||+
T Consensus 77 ~la~~a~~~G~aGvVidG~vRD~~~i~~l~~PVfa~g~~p~~~~~~~~g~~nvpV~iggv~V~PGD~IvaD~DGVvVip~ 156 (161)
T TIGR02998 77 ELAQLAANNGWEGIVVYGAVRQVDALEELDIGIQALAAIPVGADEQGIGESDIAVNFAGVTFFPDDYIYADNTGIILSPE 156 (161)
T ss_pred HHHHHHHHCCCeEEEEeecccCHHHHhhCCCCcEEeeccCCCCCCCCcceeCCCEEECCEEECCCCEEEEcCCcEEEECc
Confidence 99999999999999999999999999999999999999999888888999999999999999999999999999999999
Q ss_pred ccC
Q 031057 163 ELS 165 (166)
Q Consensus 163 ~l~ 165 (166)
+|+
T Consensus 157 ~~~ 159 (161)
T TIGR02998 157 PLE 159 (161)
T ss_pred ccc
Confidence 985
No 2
>PRK09372 ribonuclease activity regulator protein RraA; Provisional
Probab=100.00 E-value=3.8e-51 Score=316.86 Aligned_cols=158 Identities=53% Similarity=0.982 Sum_probs=148.3
Q ss_pred CCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceech
Q 031057 3 LVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGG 82 (166)
Q Consensus 3 ~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~ 82 (166)
+++|++|||++.. .++.+.|.++++++.++++|+|+||++.+||...++++++++||||||||+.++.+.|+|||
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 6899999999775 24567777877888899999999999999999999999999999999999999889999999
Q ss_pred HHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEecC
Q 031057 83 NPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILISRA 162 (166)
Q Consensus 83 ~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvviP~ 162 (166)
+++++|+++|++|+|+||++||++||++++|||||++++|.++.+...+++|+||+|+|++|+|||+|+||.|||+|||+
T Consensus 77 ~~~~~a~~~G~~G~VidG~vRD~~~i~~~~~Pvfa~g~~p~~~~~~~~~~~n~pV~iggv~V~PGD~I~aD~dGVvviP~ 156 (159)
T PRK09372 77 NLAELAVDNGWEGIVVYGCVRDVDELAELDIGIQALAAIPVKSDKEGIGERDVPVNFGGVTFFPGDYLYADNDGIIVSPE 156 (159)
T ss_pred HHHHHHHHcCCeEEEecccccCHHHHhhCCCCeEEeeecCCCCCCCCccEecccEEECCEEECCCCEEEEcCCCEEEECC
Confidence 99999999999999999999999999999999999999999887778999999999999999999999999999999999
Q ss_pred ccC
Q 031057 163 ELS 165 (166)
Q Consensus 163 ~l~ 165 (166)
+|.
T Consensus 157 ~l~ 159 (159)
T PRK09372 157 PLD 159 (159)
T ss_pred cCC
Confidence 984
No 3
>PRK12487 ribonuclease activity regulator protein RraA; Reviewed
Probab=100.00 E-value=3.6e-51 Score=317.75 Aligned_cols=158 Identities=44% Similarity=0.797 Sum_probs=150.1
Q ss_pred CCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceech
Q 031057 3 LVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGG 82 (166)
Q Consensus 3 ~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~ 82 (166)
.+.|++|||.+.+ .++.+.|.++++++.++++|+|+||++.+|+..+++++++++||||||||++++.++|+|||
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 46778888999988899999999999998999999999999999999999999899999999
Q ss_pred HHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEecC
Q 031057 83 NPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILISRA 162 (166)
Q Consensus 83 ~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvviP~ 162 (166)
+++++|+++|++|+|+||++||++||++++|||||++++|.++.+...+++|+||+|+|++|+|||+|+||+|||+|||+
T Consensus 77 ~~a~~a~~~G~aG~VidG~vRD~~~i~~l~fPVfa~g~~p~~~~~~~~~~~nvPV~iggv~V~PGDiI~aD~dGVvvip~ 156 (163)
T PRK12487 77 QIAQSALDNGWEGIVINGCVRDVGALSTMDLGVKALGASPIKTEKRGQGEVNVTLTMGNVIIEPGDMLYADENGIAVSKE 156 (163)
T ss_pred HHHHHHHHCCCeEEEEeecccCHHHHhhCCCCeEEeecCCCCCCCCCcceecccEEECCEEECCCCEEEEcCCCEEEECc
Confidence 99999999999999999999999999999999999999999887778899999999999999999999999999999999
Q ss_pred ccC
Q 031057 163 ELS 165 (166)
Q Consensus 163 ~l~ 165 (166)
+|+
T Consensus 157 ~l~ 159 (163)
T PRK12487 157 ALD 159 (163)
T ss_pred hhh
Confidence 985
No 4
>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=6.7e-50 Score=307.21 Aligned_cols=150 Identities=59% Similarity=1.106 Sum_probs=144.3
Q ss_pred hhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHH
Q 031057 6 TAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPV 85 (166)
Q Consensus 6 t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a 85 (166)
|++|||.+.+ .++.++|.|++|++.++++|+|+||++.+|+..++++|++++||||||||+.++.+.|+|||+++
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 7899999987 47889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEe
Q 031057 86 VQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILIS 160 (166)
Q Consensus 86 ~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvvi 160 (166)
++|+++|++|+|+||++||++||++++|||||++++|.++.+...+++|+||+|+|++|+|||+|+||.|||+|.
T Consensus 76 ~~a~~~G~~G~VidG~vRD~~~i~~~~~Pvfa~g~~p~~~~~~~~~~~nvPV~igGv~V~PGD~IvaD~dGVvv~ 150 (150)
T TIGR01935 76 VLAEENGWEGVIVNGCVRDVAELAGMDLGVKALAAHPRKTEKRGAGEVDVPVTFAGVTFVPGDYLYADEDGILVS 150 (150)
T ss_pred HHHHHCCCEEEEEeecccCHHHHhhCCCCEEEeeecCCCCCCCcceEecceEEECCEEECCCCEEEEcCCCEEEC
Confidence 999999999999999999999999999999999999998888889999999999999999999999999999984
No 5
>PRK06201 hypothetical protein; Validated
Probab=100.00 E-value=6.9e-49 Score=318.65 Aligned_cols=157 Identities=30% Similarity=0.488 Sum_probs=143.0
Q ss_pred CCCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeec-CcHHHHHHHhhcCCCcEEEEeCCCCCcccee
Q 031057 2 ALVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFE-DNVLIREFLEEKGNGRVLVVDGGGSLRCAIL 80 (166)
Q Consensus 2 ~~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~ 80 (166)
++++|++|||+|++++.. ...++|++ +.++++|+|+|+++.+ |+..+++++++++||||||||+.++.++|+|
T Consensus 23 ~~l~t~~v~Dal~~~g~~--~~~i~p~~----~~~~~~G~A~Tv~~~~~d~~~~~~ai~~~~pG~VlVid~~g~~~~a~~ 96 (221)
T PRK06201 23 RELPVANISDSMNRMTAG--GAGLRPMH----RGGRLAGTALTVRTRPGDNLMIHRALDLARPGDVIVVDGGGDLTNALV 96 (221)
T ss_pred hcCCchHHHHHHcccCCC--cccceecC----CCCEEEEEEEEEEeeCCCcHHHHHHHhccCCCcEEEEECCCCCCccch
Confidence 578999999999986421 23455544 4579999999999996 7889999999999999999999999999999
Q ss_pred chHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEe
Q 031057 81 GGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILIS 160 (166)
Q Consensus 81 G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvvi 160 (166)
||+++++|+++|++|+|+||++||++||++++|||||+|++|.++.+...+++|+||+|||++|+|||+|+||.|||+||
T Consensus 97 G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~fPvfa~g~~p~~~~~~~~~~~n~pV~igGv~V~PGD~I~aD~dGVvvi 176 (221)
T PRK06201 97 GEIMLAIAARRGVAGVVIDGAVRDVAALREMGFPVFARGVTHRGPYKDGPGEINVPVAIGGMVIEPGDLIVGDDDGLVAV 176 (221)
T ss_pred hHHHHHHHHHCCCeEEEEeeccCCHHHHhhCCCCeEEeccCCCCCCCCCccccCccEEECCEEEcCCCEEEEcCCceEEE
Confidence 99999999999999999999999999999999999999999998766778999999999999999999999999999999
Q ss_pred cCcc
Q 031057 161 RAEL 164 (166)
Q Consensus 161 P~~l 164 (166)
|+++
T Consensus 177 P~~~ 180 (221)
T PRK06201 177 PPAD 180 (221)
T ss_pred cHHH
Confidence 9876
No 6
>PRK09262 hypothetical protein; Provisional
Probab=100.00 E-value=2.7e-48 Score=315.84 Aligned_cols=157 Identities=24% Similarity=0.324 Sum_probs=142.7
Q ss_pred CCCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEee-cCcHHHHHHHhhcCCCcEEEEeCCCCCcccee
Q 031057 2 ALVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVF-EDNVLIREFLEEKGNGRVLVVDGGGSLRCAIL 80 (166)
Q Consensus 2 ~~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~-~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~ 80 (166)
++++|++|||+|++++.-. ..++|+ .++++++|+|+||++. .|++.++++++.++||||||||+.++.++|+|
T Consensus 21 ~~~~ta~v~Dal~~~g~~~--~~i~p~----~~~~~~~G~A~TV~~~~~d~~~~~~ai~~~~pGdVlVid~~g~~~~a~~ 94 (225)
T PRK09262 21 AEFGVATVHEAQGRVGLLK--PYMRPI----YQGARIAGTAVTVLVQPGDNWMMHVAVEQCQPGDVLVVAPTSPCTDGFF 94 (225)
T ss_pred cCCCCccHHHHhcccCCCC--cceEEC----CCCCeEEEEEEEEEeecCCcHHHHHHHHccCCCCEEEEECCCCCceeee
Confidence 5789999999999864211 234554 3457999999999999 48899999999999999999999999999999
Q ss_pred chHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEe
Q 031057 81 GGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILIS 160 (166)
Q Consensus 81 G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvvi 160 (166)
||+++++|+++|++|+|+||++||+++|++++|||||+|++|.++.+...+++|+||+|||++|+|||+|+||.|||+||
T Consensus 95 Ge~~a~~a~~~G~~GiVidG~vRD~~~i~~l~~Pvfa~g~~p~~~~~~~~~~~nvpV~iggv~V~PGD~IvaD~dGVvvI 174 (225)
T PRK09262 95 GDLLATSLQARGVRGLVIDAGVRDVRTLTEMGFPVWSRAISAQGTVKATLGSVNVPVVCAGALVNPGDVVVADDDGVVVV 174 (225)
T ss_pred hHHHHHHHHHCCCeEEEEeceeCCHHHHhhCCCceEEeecCCCCCCCCCcceecccEEECCEEECCCCEEEEECCcEEEE
Confidence 99999999999999999999999999999999999999999988777778999999999999999999999999999999
Q ss_pred cCcc
Q 031057 161 RAEL 164 (166)
Q Consensus 161 P~~l 164 (166)
|+++
T Consensus 175 P~~~ 178 (225)
T PRK09262 175 PRAQ 178 (225)
T ss_pred CHHH
Confidence 9875
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=2.6e-48 Score=315.31 Aligned_cols=157 Identities=21% Similarity=0.301 Sum_probs=142.9
Q ss_pred CCCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeec-CcHHHHHHHhhcCCCcEEEEeCCCCCcccee
Q 031057 2 ALVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFE-DNVLIREFLEEKGNGRVLVVDGGGSLRCAIL 80 (166)
Q Consensus 2 ~~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~ 80 (166)
++++|++|||+|++++.- ...++|+ .++++++|+|+||++.+ ||..+++++++++||||||||+.++.++|+|
T Consensus 19 ~~~~ta~v~Dal~~~g~~--~~~I~p~----~~~~ki~G~A~TV~~~~~d~~~~~~ai~~~~pGdVlVid~~g~~~~a~~ 92 (222)
T TIGR02798 19 AAFGVATVHEAMGRVGLL--APYMRPI----YTGARVCGTAVTVLLQPGDNWMMHVAAEQIQEGDVVVAACTAECEDGYF 92 (222)
T ss_pred hCCCCccHHHHhcccCCC--CccceEc----CCCCEEEEEEEEEEeecCCchHHHHHHHhCCCCeEEEEECCCCcceEee
Confidence 578999999999986531 1234554 34579999999999995 8899999999999999999999998899999
Q ss_pred chHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEe
Q 031057 81 GGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILIS 160 (166)
Q Consensus 81 G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvvi 160 (166)
||+++++|+++|++|+|+||++||+++|++++|||||++++|.++.+...+++|+||.|+|++|+|||+|+||.||||||
T Consensus 93 G~~~a~~a~~~G~~GiVidG~vRD~~~i~~l~~Pvfa~g~~p~~~~~~~~~~~nvpv~iggv~V~PGD~i~aD~dGVvvi 172 (222)
T TIGR02798 93 GDLLATSFQARGCRGLIIDAGVRDVRDLTEMNFPVWSKAIHAKGTVKATLGSVNIPVVCANALVNPGDVVVADDDGVVVV 172 (222)
T ss_pred hHHHHHHHHHCCCeEEEEecccCCHHHHhhCCCceEEeecCCCCCCCCCccccCCCEEECCEEECCCCEEEEcCCcEEEE
Confidence 99999999999999999999999999999999999999999988777788999999999999999999999999999999
Q ss_pred cCcc
Q 031057 161 RAEL 164 (166)
Q Consensus 161 P~~l 164 (166)
|+++
T Consensus 173 P~~~ 176 (222)
T TIGR02798 173 PRAN 176 (222)
T ss_pred cHHH
Confidence 9875
No 8
>COG0684 MenG Demethylmenaquinone methyltransferase [Coenzyme metabolism]
Probab=100.00 E-value=1.7e-48 Score=312.66 Aligned_cols=159 Identities=42% Similarity=0.725 Sum_probs=143.3
Q ss_pred hhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHH
Q 031057 6 TAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPV 85 (166)
Q Consensus 6 t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a 85 (166)
|.++||++....-.+....+.|.++++++.++|+|+|+||||.++|+..+.+|++++||||||||+.++.++|+||++++
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 55666665543222233445567777787889999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEecCcc
Q 031057 86 VQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILISRAEL 164 (166)
Q Consensus 86 ~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvviP~~l 164 (166)
+.|+.|||+|+|+||+|||++++++|+||+||++++|.++.+...+++|+||+|||++|+|||||+||+|||||+|+++
T Consensus 93 ~~a~~~G~~GvVidG~vRDv~~l~el~~pv~a~~~~p~~~~k~~~geinvpV~~gGv~v~PGD~vvgD~dGvVVvp~~~ 171 (210)
T COG0684 93 TLAKVRGWAGVVIDGAVRDVDELRELDFPVFARGVTPRGATKRGIGEVNVPVTCGGVTVNPGDIVVADADGVVVVPAEL 171 (210)
T ss_pred HHHHHcCccEEEEeceeechHHHhhcCCCeEeccccCCCCCcCCcceecccEEECCEEECCCCEEEEcCCceEEeccch
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999876
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=5.6e-48 Score=297.82 Aligned_cols=152 Identities=38% Similarity=0.682 Sum_probs=135.4
Q ss_pred CCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeec-CcHHHHHHHhhcCCCcEEEEeCCCCCccceec
Q 031057 3 LVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFE-DNVLIREFLEEKGNGRVLVVDGGGSLRCAILG 81 (166)
Q Consensus 3 ~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G 81 (166)
.++|++|||+|++. ++.+.|.++++.+.++++|||+|+++.+ ++...+++++.++||+|||+|+.++.+.|+||
T Consensus 2 ~i~ta~l~Dal~~~-----~~~~~~~~~~~~~~~~~~G~A~Tv~~~~~~~~~~~~~i~~~~~G~VlVid~~~~~~~a~~G 76 (154)
T PF03737_consen 2 NISTADLCDALGKR-----LGGMNPIIRPLPPGMKIVGPAVTVRFAPGDNLLVREAIDAAPPGDVLVIDGGGDTDCAVWG 76 (154)
T ss_dssp HCHHHHHHHHHGGT-----SEEEESTSEESSSCSSEEEEEEEEEESSTBSHHHHHHHTSS-TTEEEEEEETTGSSSEEE-
T ss_pred ccchhhHhHCcccc-----cCEeccccccCCCCCEEEEEEEEEEEECCCCHHHHHHHhcCCCCeEEEEECCCCcceeeEC
Confidence 37899999999852 3445565555677899999999999998 88999999999999999999999988999999
Q ss_pred hHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEE
Q 031057 82 GNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILI 159 (166)
Q Consensus 82 ~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvv 159 (166)
|+++++|+++|++|+|+||++||++||++++||+||+|++|.++.+...+++|+||+|+|++|+|||+|+||.|||||
T Consensus 77 ~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~Pvfa~g~~p~~~~~~~~~~~~~pv~~gGv~V~pGD~I~aD~dGVvV 154 (154)
T PF03737_consen 77 ELMATAAKARGVAGVVIDGAVRDVDEIRELGFPVFARGTTPRGGKKRGVGEINVPVTIGGVTVNPGDIIVADDDGVVV 154 (154)
T ss_dssp HHHHHHHHHTTBSEEEEEEEES-HHHHTTSSSEEEEEEE-SSBTBCSSESEESSEEEETTEEE-TTSEEEEETTEEEE
T ss_pred HHHHHHHHHCCCeEEECCCcccCHHHHhhcCCCeEecccCcccCcceeeeeeCCeEEECCEEECCCCEEEECCCcEEC
Confidence 999999999999999999999999999999999999999999888888999999999999999999999999999997
No 10
>PRK08245 hypothetical protein; Validated
Probab=100.00 E-value=1.7e-47 Score=313.89 Aligned_cols=161 Identities=26% Similarity=0.350 Sum_probs=142.7
Q ss_pred CCCCchhhHhhhccCCcc-CCeeeeccccccccCCCeeEEEEEEEEEeec-Cc------------HHHHHHHhhcCCCcE
Q 031057 1 MALVTTAEVCDANPQLIV-SGELRALQPIFQIYGRRQVFSGPIVTLKVFE-DN------------VLIREFLEEKGNGRV 66 (166)
Q Consensus 1 ~~~~~t~~v~Da~~~~~~-~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~------------~~~~~~i~~~~~G~V 66 (166)
+++++|++|||+|++++. .+++..++|+++ +..+++|+|+||++.+ ++ ..++++|+.++||||
T Consensus 14 l~~l~t~~v~Dal~~~g~~~~~~~~i~pl~p---~~~~~~G~A~TV~~~p~~~~~~~~~~~~~~~~~~~~aid~~~~GdV 90 (240)
T PRK08245 14 LKRVSTATLTTALFKRGLRNQFIRGVRPLRP---GGPRMVGPAFTLRFVPAREDLNTPESFADPESPQRAAIETCPPGCV 90 (240)
T ss_pred HhcCChhHHHHHHHhcCCccccCCCceecCC---CCCeEEEEEEEEEeecCCCcccccccccccchhHHHHHhccCCCeE
Confidence 357999999999999874 445566777654 1248999999999985 21 237899999999999
Q ss_pred EEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCC-CccceeeeeeEEECCEEEc
Q 031057 67 LVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKAN-KKGIGEKHVPITIGGTRIS 145 (166)
Q Consensus 67 lVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~-~~~~~~~~~pV~igGv~V~ 145 (166)
||||+.+..+.|+|||+++++|+++|++|+|+||++||++||++++|||||+|++|.++. +...+++|+||+|||++|+
T Consensus 91 lVid~~g~~~~a~~G~~~~~~a~~~G~~G~VidG~vRD~~ei~~~gfPvfarg~~p~~~~~~~~~~~~nvPV~igGv~V~ 170 (240)
T PRK08245 91 LVVDARGDARAGSFGDILCTRLKKRGVAGLVTDGGVRDSPGIAALGLPVWCAGPSAPTNLTGLTAVDINVPIGCGGVAVF 170 (240)
T ss_pred EEEECCCCCCccccHHHHHHHHHHCCCeEEEEeeccCCHHHHhhCCCceEecccCCCCCCCCCceEeecCCEEECCEEEc
Confidence 999999988999999999999999999999999999999999999999999999997665 5678999999999999999
Q ss_pred cCCEEEEeCCceEEecCcc
Q 031057 146 DGEWLYADTDGILISRAEL 164 (166)
Q Consensus 146 pGD~i~aD~dGVvviP~~l 164 (166)
|||+|+||.|||+|||+++
T Consensus 171 PGD~I~aD~dGVvvIP~~~ 189 (240)
T PRK08245 171 PGDIIVADDDGVVVIPAAL 189 (240)
T ss_pred CCCEEEEcCCceEEEcHHH
Confidence 9999999999999999875
No 11
>PRK07028 bifunctional hexulose-6-phosphate synthase/ribonuclease regulator; Validated
Probab=100.00 E-value=2e-44 Score=316.10 Aligned_cols=155 Identities=29% Similarity=0.469 Sum_probs=142.1
Q ss_pred CCCchhhHhhhccCCccCCeeeeccccccccCCCeeEEEEEEEEEeec-CcHHHHHHHhhcCCCcEEEEeCCCCCcccee
Q 031057 2 ALVTTAEVCDANPQLIVSGELRALQPIFQIYGRRQVFSGPIVTLKVFE-DNVLIREFLEEKGNGRVLVVDGGGSLRCAIL 80 (166)
Q Consensus 2 ~~~~t~~v~Da~~~~~~~g~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~ 80 (166)
++++|++|||+|++++ .+..++|+++ +.+++|+|+|+++.+ |+...+++++.++||||||||+ ++.++|+|
T Consensus 234 ~~~~t~~i~d~l~~~g---~~~~i~p~~~----~~~~~G~A~Tv~~~~~d~~~~~~~~~~~~~G~VlVi~~-~~~~~a~~ 305 (430)
T PRK07028 234 MQVSTPNISDAMHRKG---AMKGIKPLVR----GTKMVGKAVTVQTFAGDWAKPVEAIDVAKPGDVIVIYN-SSKDIAPW 305 (430)
T ss_pred cCCCCCcHHhhhhccC---CCceeeecCC----CCeEEEEEEEEEeeCCCcHHHHHHHhcCCCCeEEEEEC-CCCCceee
Confidence 5799999999999864 3456777653 468999999999996 7788899999999999999999 67899999
Q ss_pred chHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCceEEe
Q 031057 81 GGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDGILIS 160 (166)
Q Consensus 81 G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dGVvvi 160 (166)
||+++++|+++|++|+|+||++||+++++++||||||+|++|.++.+...+++|+||+|+|++|+|||+|+||.||||||
T Consensus 306 G~~~~~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~~~g~~p~~~~~~~~~~~nvpv~~ggv~V~pGD~i~aD~dGvvvi 385 (430)
T PRK07028 306 GELATLSCLNKGIAGVVIDGAVRDVDEIRKLGFPVFARAIVPNAGEPKGFGEINAEIVCGGQTVRPGDWIIGDENGVVVV 385 (430)
T ss_pred cHHHHHHHHHCCCeEEEEeeccCCHHHHhhCCCCeEeeecCCCCCCCCCccccCCCEEECCEEECCCCEEEEcCCceEEE
Confidence 99999999999999999999999999999999999999999987766678999999999999999999999999999999
Q ss_pred cCcc
Q 031057 161 RAEL 164 (166)
Q Consensus 161 P~~l 164 (166)
|+++
T Consensus 386 p~~~ 389 (430)
T PRK07028 386 PKER 389 (430)
T ss_pred cHHH
Confidence 9875
No 12
>PRK12764 hypothetical protein; Provisional
Probab=100.00 E-value=1.9e-43 Score=315.25 Aligned_cols=159 Identities=22% Similarity=0.341 Sum_probs=142.4
Q ss_pred CCCchhhHhhhccCCccCC-eeeeccccccccCCCeeEEEEEEEEEeec-Cc----------HHHHHHHhhcCCCcEEEE
Q 031057 2 ALVTTAEVCDANPQLIVSG-ELRALQPIFQIYGRRQVFSGPIVTLKVFE-DN----------VLIREFLEEKGNGRVLVV 69 (166)
Q Consensus 2 ~~~~t~~v~Da~~~~~~~g-~~~~l~p~~~~~~~~~~~~G~A~Tv~~~~-d~----------~~~~~~i~~~~~G~VlVv 69 (166)
++++|++|||+|+++++.+ .+.+++|+.+ .++++|+|+|+++.+ ++ ...+++++.++|||||||
T Consensus 276 ~~l~ta~vsdal~~~g~~~~~~~~i~p~~p----~~k~vG~A~Tv~~~p~~~~~~~~~~~~~~~~~~aid~~~pGdVlVI 351 (500)
T PRK12764 276 ASVATATLSAQLRKRGLNNVSIDGLTPTRP----GRRMVGRARTLRYVPNREDLFKEHGGGFNAQKRAFDSVNPGEVLVI 351 (500)
T ss_pred hcCCcchHHHHHhhcCCCcccccCceecCC----CCeEEEEEEEEEeecCCcccccccccchhHHHHHHhcCCCCeEEEE
Confidence 5789999999999987543 4567777653 479999999999985 22 346799999999999999
Q ss_pred eCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeecCCCCCc-cceeeeeeEEECCEEEccCC
Q 031057 70 DGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHPMKANKK-GIGEKHVPITIGGTRISDGE 148 (166)
Q Consensus 70 d~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p~~~~~~-~~~~~~~pV~igGv~V~pGD 148 (166)
|+.+..+.|+|||+++++|+++|++|+|+||+|||+++|++++|||||+|++|..+.+. ..+++|+||+|||++|+|||
T Consensus 352 d~~g~~~~a~~Gel~a~~a~~~G~~G~ViDG~vRD~~ei~~lg~PVfarg~~p~~~~~~~~~~~~nvpV~~gGv~V~PGD 431 (500)
T PRK12764 352 EARGEKGTGTLGDILALRAQVRGAAGVVTDGGVRDYAAVAELGLPVFFAGPHPAVLGRRHVPWDVDITVACGGATVQPGD 431 (500)
T ss_pred ECCCCCCeEchHHHHHHHHHHCCCeEEEEeecccCHHHHHhCCCCeEEeecCCCCCCcCcccceeCCcEEECCEEEcCCC
Confidence 99998899999999999999999999999999999999999999999999999876644 56899999999999999999
Q ss_pred EEEEeCCceEEecCcc
Q 031057 149 WLYADTDGILISRAEL 164 (166)
Q Consensus 149 ~i~aD~dGVvviP~~l 164 (166)
+|+||.|||||||+++
T Consensus 432 iIvaD~dGVvvIP~~~ 447 (500)
T PRK12764 432 VIVGDDDGVVVIPPAL 447 (500)
T ss_pred EEEEcCCcEEEEcHHH
Confidence 9999999999999875
No 13
>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=62.45 E-value=19 Score=24.35 Aligned_cols=53 Identities=23% Similarity=0.425 Sum_probs=32.6
Q ss_pred hhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeC------ccCCHHHHhcCCccEE
Q 031057 59 EEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNG------CIRDVDEINGCDIGVR 116 (166)
Q Consensus 59 ~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG------~vRD~~~i~~~~~pv~ 116 (166)
..--.|.|++++.+.. .| ......|+++|+.|+|+-- .-.+..+-....+|+.
T Consensus 29 ~~~~~gkIvlv~rg~~----~~-~~k~~~a~~~GA~gvIi~~~~~~~~~~~~~~~~~~~~iP~v 87 (101)
T PF02225_consen 29 GSDVKGKIVLVERGSC----SF-DDKVRNAQKAGAKGVIIYNPPPNNGSMIDSEDPDPIDIPVV 87 (101)
T ss_dssp TSTCTTSEEEEESTSS----CH-HHHHHHHHHTTESEEEEE-TSCSCTTTTCEBTTTSTBSEEE
T ss_pred CccccceEEEEecCCC----CH-HHHHHHHHHcCCEEEEEEeCCccccCcccccCCCCcEEEEE
Confidence 3445799999965532 23 5566788899999998866 3333333334455554
No 14
>PRK12448 dihydroxy-acid dehydratase; Provisional
Probab=60.86 E-value=27 Score=32.86 Aligned_cols=101 Identities=18% Similarity=0.198 Sum_probs=56.4
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHHHHH--HcCC---cEEEeeCccCCHHHH
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVVQAQ--NNGW---AGIVVNGCIRDVDEI 108 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~--~~G~---~G~VidG~vRD~~~i 108 (166)
.++-|||+ ++.+.....++|+ .+++|||+||-..|....-=.-|++...+. .+|. ..+|+||.--=.
T Consensus 445 ~~~~GpA~---VFdsee~a~~ai~~g~I~~gdVvVIRyeGPkGgPGMpEml~~t~aL~g~Glg~~VaLITDGRfSGa--- 518 (615)
T PRK12448 445 LKFTGPAR---VFESQDDAVEAILGGKVKAGDVVVIRYEGPKGGPGMQEMLYPTSYLKSKGLGKACALITDGRFSGG--- 518 (615)
T ss_pred eEEEEeEE---EECCHHHHHHHHhcCCCCCCeEEEEeCCCCCCCcCHHHHHHHHHHHHhCCCCCceEEecccCcCCc---
Confidence 45667654 4444455566665 588999999987765332233465554443 4555 788999863200
Q ss_pred hcCCccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 109 NGCDIGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 109 ~~~~~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
..|+ .-..++|= ...+-|| ..|+-||+|.-|...
T Consensus 519 -s~G~--~igHVsPE-------Aa~GGpI----alV~dGD~I~IDi~~ 552 (615)
T PRK12448 519 -TSGL--SIGHVSPE-------AASGGAI----GLVEDGDIIEIDIPN 552 (615)
T ss_pred -ccCC--EEEEEChh-------hccCCcE----EEEeCCCEEEEECCC
Confidence 0011 00111111 1123444 469999999998743
No 15
>PRK13016 dihydroxy-acid dehydratase; Provisional
Probab=60.02 E-value=32 Score=32.09 Aligned_cols=100 Identities=12% Similarity=0.171 Sum_probs=55.4
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHhh----cCCCcEEEEeCCCCCccceech---HH-HHHHHHcCCc--EEEeeCccCCH
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLEE----KGNGRVLVVDGGGSLRCAILGG---NP-VVQAQNNGWA--GIVVNGCIRDV 105 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~~----~~~G~VlVvd~~g~~~~a~~G~---~~-a~~a~~~G~~--G~VidG~vRD~ 105 (166)
.++.|||+- +.+.....++|+. +++|||+||-.-|.....=.=| +. .+.+..+|.. .+|+||.--
T Consensus 403 ~~~~GpA~V---F~see~a~~ai~~g~i~i~~GdVvVIRyeGPkGgPGMpE~~ml~~~~~~~~~Gl~~valITDGRfS-- 477 (577)
T PRK13016 403 LVHRGPALV---FDSYPEMKAAIDDENLDVTPDHVMVLRNAGPQGGPGMPEWGMLPIPKKLLKQGVRDMVRISDARMS-- 477 (577)
T ss_pred cEEEeeEEE---ECCHHHHHHHHhCCCcCCCCCeEEEEeCCCCCCCCCCcccccchhHHHHHHcCCceeEEeccCccC--
Confidence 456777653 3445566677754 3499999998766433222334 43 4556567664 668888632
Q ss_pred HHHhcCCccEEEeeeecCCCCCccc-eeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 106 DEINGCDIGVRALASHPMKANKKGI-GEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 106 ~~i~~~~~pv~a~g~~p~~~~~~~~-~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
| .++|.+- ....+ ...+-|| ..|+.||.|--|.+.
T Consensus 478 ------G---~s~G~~i---gHVsPEAa~GGPI----alV~dGD~I~IDi~~ 513 (577)
T PRK13016 478 ------G---TSYGACV---LHVAPEAYVGGPL----ALVRTGDIIELDVPA 513 (577)
T ss_pred ------C---ccCCCEE---EEEChhhhcCCcE----EEEeCCCEEEEEcCC
Confidence 1 1222110 00111 1124455 469999999998753
No 16
>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=55.96 E-value=26 Score=26.67 Aligned_cols=42 Identities=21% Similarity=0.260 Sum_probs=28.8
Q ss_pred CCCcEEEEeCCCC-----------Cccceech--HHHHHHHHcCCcEEEeeCccC
Q 031057 62 GNGRVLVVDGGGS-----------LRCAILGG--NPVVQAQNNGWAGIVVNGCIR 103 (166)
Q Consensus 62 ~~G~VlVvd~~g~-----------~~~a~~G~--~~a~~a~~~G~~G~VidG~vR 103 (166)
-.|.|+||..+.. ...+.|+. .-...|+++|+.|+|+=-..+
T Consensus 46 VkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIii~~~~ 100 (142)
T cd04814 46 VKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLIVHELA 100 (142)
T ss_pred CCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEEEeCCC
Confidence 4799999864422 23455654 367889999999998755443
No 17
>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=53.32 E-value=50 Score=26.96 Aligned_cols=75 Identities=21% Similarity=0.254 Sum_probs=44.1
Q ss_pred cccccccCCCeeEEEEEEEEEee-cCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCC
Q 031057 26 QPIFQIYGRRQVFSGPIVTLKVF-EDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRD 104 (166)
Q Consensus 26 ~p~~~~~~~~~~~~G~A~Tv~~~-~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD 104 (166)
.|.|..+.....+.|+.+=+.+- .++...++....--.|.|+++..+.. +=..-...|+++|++|+|+---..|
T Consensus 33 ~~~f~a~s~sg~v~g~lVyvnyG~~~D~~~L~~~gvdv~GKIvLvr~G~~-----~~~~Kv~~A~~~GA~gVIiy~Dp~d 107 (220)
T cd02121 33 VPPFHAYSASGNVTAELVYANYGSPEDFEYLEDLGIDVKGKIVIARYGGI-----FRGLKVKNAQLAGAVGVIIYSDPAD 107 (220)
T ss_pred cccceecCCCCCceEEEEEcCCCcHHHHHHHhhcCCCCCCeEEEEECCCc-----cHHHHHHHHHHcCCEEEEEEeCchh
Confidence 35566666555566666655433 22221111122234799998876532 2246677899999999999765555
Q ss_pred H
Q 031057 105 V 105 (166)
Q Consensus 105 ~ 105 (166)
.
T Consensus 108 ~ 108 (220)
T cd02121 108 D 108 (220)
T ss_pred c
Confidence 4
No 18
>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=53.22 E-value=27 Score=25.62 Aligned_cols=32 Identities=22% Similarity=0.478 Sum_probs=25.3
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|.|++|+.++ |. | ...+..|+++|++|+|+-
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 22 3 566888999999999984
No 19
>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=49.45 E-value=60 Score=25.77 Aligned_cols=64 Identities=22% Similarity=0.266 Sum_probs=37.3
Q ss_pred ccccCCCeeEEEEEEEEEeecCcHHHHHHHh---hcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 29 FQIYGRRQVFSGPIVTLKVFEDNVLIREFLE---EKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 29 ~~~~~~~~~~~G~A~Tv~~~~d~~~~~~~i~---~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
|.++.+...+-|+.+=+..- ...=.+.++ ..-.|.|+++..+.. .+|+. ...|+++|++|+|+-
T Consensus 20 f~~~s~~G~v~g~lVyvn~G--~~~Df~~L~~~gv~v~GkIvLvr~G~~----~~~~K-v~~A~~~GA~gvIiy 86 (183)
T cd02128 20 YVAYSAAGTVTGKLVYANYG--RKKDFEDLQSVGVSVNGSVVLVRAGKI----SFAEK-VANAEKLGAVGVLIY 86 (183)
T ss_pred ccCCCCCCceEEEEEEcCCC--CHHHHHHHHhcCCCCCCeEEEEECCCC----CHHHH-HHHHHHCCCEEEEEe
Confidence 44455444556665555322 111112232 234799999987532 35555 455999999999994
No 20
>PRK00911 dihydroxy-acid dehydratase; Provisional
Probab=47.02 E-value=57 Score=30.34 Aligned_cols=98 Identities=17% Similarity=0.217 Sum_probs=55.5
Q ss_pred EEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHHHHH--HcCC---cEEEeeCccCCHHHHhc
Q 031057 38 FSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVVQAQ--NNGW---AGIVVNGCIRDVDEING 110 (166)
Q Consensus 38 ~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~--~~G~---~G~VidG~vRD~~~i~~ 110 (166)
+-|||+ ++.+.....++|+ .+++|||+||-..|....-=.=|++...+. .+|. ..+|+||.--
T Consensus 397 ~~GpA~---VF~see~a~~ai~~g~I~~gdVvViRyeGPkGgPGMpEml~~t~al~g~Gl~~~valITDGRfS------- 466 (552)
T PRK00911 397 FTGPAR---VFDSEEEAMEAILAGKIKAGDVVVIRYEGPKGGPGMREMLAPTSAIVGAGLGDDVALITDGRFS------- 466 (552)
T ss_pred eeeeEE---EECCHHHHHHHHhcCCCCCCeEEEEeCCCCCCCCChHHHhhHHHHHHhCCCCCceEEecccccC-------
Confidence 667654 4445556666775 589999999987765432223366655444 3344 4788888532
Q ss_pred CCccEEEeeeecCCCCCccc-eeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 111 CDIGVRALASHPMKANKKGI-GEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 111 ~~~pv~a~g~~p~~~~~~~~-~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
| .++|.+-- ...+ ...+-|| ..|+.||.|.-|.+.
T Consensus 467 -G---~s~G~~ig---HvsPEAa~GGpI----alv~dGD~I~IDi~~ 502 (552)
T PRK00911 467 -G---GTRGLCVG---HVSPEAAVGGPI----ALVEDGDIITIDAPN 502 (552)
T ss_pred -c---cccCCEEE---EEChhhcCCCcE----EEEeCCCEEEEecCC
Confidence 1 12221100 0111 1124455 469999999998754
No 21
>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=46.34 E-value=46 Score=25.12 Aligned_cols=83 Identities=16% Similarity=0.113 Sum_probs=48.1
Q ss_pred eeEEEEEEEEEeec-Cc-HHHHHHHhhcCCCcEEEEeCCCCC-----ccceech--HHHHHHHHcCCcEEEeeCccCC--
Q 031057 36 QVFSGPIVTLKVFE-DN-VLIREFLEEKGNGRVLVVDGGGSL-----RCAILGG--NPVVQAQNNGWAGIVVNGCIRD-- 104 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~-d~-~~~~~~i~~~~~G~VlVvd~~g~~-----~~a~~G~--~~a~~a~~~G~~G~VidG~vRD-- 104 (166)
..+.|+.+-+-+-- +. ....++-..--.|.|+++..+... ..+.|+. .-...|.++|++|+|+---..+
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 45667777776541 11 111122122347999999875421 2344544 3678899999999988665554
Q ss_pred ---HHHHhcC-CccEEEe
Q 031057 105 ---VDEINGC-DIGVRAL 118 (166)
Q Consensus 105 ---~~~i~~~-~~pv~a~ 118 (166)
.+++... .=|.|..
T Consensus 100 ~~~~~~~~~~~~~~~~~~ 117 (137)
T cd04820 100 IRPWERSVNYADGPSMTW 117 (137)
T ss_pred cCCHHHHhhccCCCceEe
Confidence 4456654 3355554
No 22
>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=46.07 E-value=22 Score=32.81 Aligned_cols=64 Identities=16% Similarity=0.228 Sum_probs=36.2
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHH--HHHHcCC---cEEEeeCcc
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVV--QAQNNGW---AGIVVNGCI 102 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~--~a~~~G~---~G~VidG~v 102 (166)
.++.|+|+- +.+.....++|. ++++|||+||-.-|....-=.=|++.. +...+|. ..+|+||.-
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 567787754 444455566665 589999999987653222123344432 2236666 889999963
No 23
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=45.78 E-value=55 Score=30.33 Aligned_cols=100 Identities=17% Similarity=0.198 Sum_probs=55.2
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHHHHHH--cCC---cEEEeeCccCCHHHH
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVVQAQN--NGW---AGIVVNGCIRDVDEI 108 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~--~G~---~G~VidG~vRD~~~i 108 (166)
.++-|||+- +.+.....++|+ ++++|||+||-..|....-=.=|++...+.- .|. .++|+||.--
T Consensus 380 ~~~~G~A~V---F~see~a~~ai~~g~i~~gdVvViRyeGPkGgPGMpEml~~t~al~g~glg~~VaLITDGRfS----- 451 (535)
T TIGR00110 380 TKFEGPAKV---FESEEEALEAILGGKIKEGDVVVIRYEGPKGGPGMPEMLAPTSAIKGMGLGKSVALITDGRFS----- 451 (535)
T ss_pred cEEEEeEEE---ECCHHHHHHHHhcCCCCCCeEEEEeCCCCCCCCChhhhcchHHHHHhCCCCCceEEeccCccC-----
Confidence 456676643 344455666665 5889999999877653222333555544443 333 5788888632
Q ss_pred hcCCccEEEeeeecCCCCCccc-eeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 109 NGCDIGVRALASHPMKANKKGI-GEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 109 ~~~~~pv~a~g~~p~~~~~~~~-~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
| -++|.+- ....+ ...+-|| ..|+.||+|.-|...
T Consensus 452 ---G---as~G~~i---gHVsPEAa~GGpI----alv~dGD~I~ID~~~ 487 (535)
T TIGR00110 452 ---G---GTRGLCI---GHVSPEAAEGGPI----ALVEDGDIIIIDIPN 487 (535)
T ss_pred ---C---cCCCCEE---EEEChhhhcCCcE----EEEeCCCEEEEECCC
Confidence 1 1111110 00011 1124444 469999999999753
No 24
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=45.66 E-value=9.6 Score=32.98 Aligned_cols=59 Identities=20% Similarity=0.364 Sum_probs=43.0
Q ss_pred HHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeee
Q 031057 55 REFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASH 121 (166)
Q Consensus 55 ~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~ 121 (166)
.+++ ++.+|| -||.++. .+-.|-...+.|+++|.+-+ .-|||-+.+.++.=-.|+.|.+
T Consensus 153 ~dfv-~L~~GD-~vIQNga---nS~VG~~ViQlaka~Gikti---nvVRdR~~ieel~~~Lk~lGA~ 211 (354)
T KOG0025|consen 153 KDFV-QLNKGD-SVIQNGA---NSGVGQAVIQLAKALGIKTI---NVVRDRPNIEELKKQLKSLGAT 211 (354)
T ss_pred HHHH-hcCCCC-eeeecCc---ccHHHHHHHHHHHHhCcceE---EEeecCccHHHHHHHHHHcCCc
Confidence 3444 667899 7777654 56688899999999998865 5589888887776666666654
No 25
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=45.45 E-value=77 Score=26.08 Aligned_cols=64 Identities=16% Similarity=0.252 Sum_probs=42.8
Q ss_pred HHHHHHhhcCCCcEEEEeCC--CCCccceechHHHHHHHHcCCcEEEeeCccCCHHHHhcC-CccEEE
Q 031057 53 LIREFLEEKGNGRVLVVDGG--GSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEINGC-DIGVRA 117 (166)
Q Consensus 53 ~~~~~i~~~~~G~VlVvd~~--g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~-~~pv~a 117 (166)
...+.+.+.+-|=|+=.+.- ...+...+=..|+.+|..-|+.|+=++ .++|+.++++. ++|++.
T Consensus 5 ~~~~~~~~~~gglIVSCQal~~~pl~~~~iv~~mA~Aa~~gGAvgiR~~-gv~dIkai~~~v~vPIIG 71 (229)
T COG3010 5 SKEKLKEQLKGGLIVSCQALPGEPLDSPEIVAAMALAAEQGGAVGIRIE-GVEDIKAIRAVVDVPIIG 71 (229)
T ss_pred hHHHHHHHhcCCeEEEeecCCCCCCcchhHHHHHHHHHHhCCcceEeec-chhhHHHHHhhCCCCeEE
Confidence 34455666664433322211 123444444567888889999999999 68999999985 999974
No 26
>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=44.24 E-value=49 Score=25.40 Aligned_cols=69 Identities=13% Similarity=0.114 Sum_probs=39.4
Q ss_pred eEEEEEEEEEeecCc--HHHHHHHhhcCCCcEEEEeCCCC-----------Cccceech--HHHHHHHHcCCcEEEeeCc
Q 031057 37 VFSGPIVTLKVFEDN--VLIREFLEEKGNGRVLVVDGGGS-----------LRCAILGG--NPVVQAQNNGWAGIVVNGC 101 (166)
Q Consensus 37 ~~~G~A~Tv~~~~d~--~~~~~~i~~~~~G~VlVvd~~g~-----------~~~a~~G~--~~a~~a~~~G~~G~VidG~ 101 (166)
.+-|+.+-+-+--+. ....++-..--.|.|++|..+.. ...+-|.. .-...|+++|++|+|+---
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 456776666543111 11112222234799999965532 12233443 4677899999999998765
Q ss_pred cCCH
Q 031057 102 IRDV 105 (166)
Q Consensus 102 vRD~ 105 (166)
.++-
T Consensus 99 ~~~~ 102 (151)
T cd04822 99 PNSH 102 (151)
T ss_pred Cccc
Confidence 5553
No 27
>PRK06131 dihydroxy-acid dehydratase; Validated
Probab=42.69 E-value=82 Score=29.47 Aligned_cols=100 Identities=13% Similarity=0.154 Sum_probs=53.8
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHhh----cCCCcEEEEeCCCCCccceech---HHHHHH-HHcCC--cEEEeeCccCCH
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLEE----KGNGRVLVVDGGGSLRCAILGG---NPVVQA-QNNGW--AGIVVNGCIRDV 105 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~~----~~~G~VlVvd~~g~~~~a~~G~---~~a~~a-~~~G~--~G~VidG~vRD~ 105 (166)
.++.|||+-. ++.....++|+. +++|||+||-..|....-=.=| +..+.+ +..|. .++|+||.--
T Consensus 398 ~~~~G~A~VF---~see~a~~ai~~g~i~i~~gdVvVIRyeGPkGgPGMpE~~mL~~t~al~g~Gl~~vaLITDGRfS-- 472 (571)
T PRK06131 398 LKHEGRAVVF---EGYEDYKARIDDPDLDVDEDTVLVLRNAGPKGYPGMPEVGNMPIPKKLLRQGVKDMVRISDARMS-- 472 (571)
T ss_pred cEEEeeeEEE---CCHHHHHHHHhCCCcCCCCCeEEEEeCCCCCCCCCCccccccccHHHHHhCCCceeEEeccCCcC--
Confidence 4567776543 344556667764 3499999998766432222334 333333 34453 3788888632
Q ss_pred HHHhcCCccEEEeeeecCCCCCccc-eeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 106 DEINGCDIGVRALASHPMKANKKGI-GEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 106 ~~i~~~~~pv~a~g~~p~~~~~~~~-~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
| .++|.+- ....+ ...+-|| ..|+.||.|.-|.+.
T Consensus 473 ------G---as~G~~i---gHVsPEAa~GGpI----alV~dGD~I~IDi~~ 508 (571)
T PRK06131 473 ------G---TAYGTVV---LHVAPEAAAGGPL----ALVRTGDRIRLDVPA 508 (571)
T ss_pred ------c---ccCCCeE---EEEChhhccCCcE----EEEeCCCEEEEecCC
Confidence 1 1122110 00111 1124444 469999999998753
No 28
>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=41.53 E-value=58 Score=25.14 Aligned_cols=37 Identities=19% Similarity=0.241 Sum_probs=25.3
Q ss_pred CCCcEEEEeCCCC------------Cccceech--HHHHHHHHcCCcEEEe
Q 031057 62 GNGRVLVVDGGGS------------LRCAILGG--NPVVQAQNNGWAGIVV 98 (166)
Q Consensus 62 ~~G~VlVvd~~g~------------~~~a~~G~--~~a~~a~~~G~~G~Vi 98 (166)
-.|+|+|+-.++. ...+.||. .-...|+++|+.|+|+
T Consensus 48 VkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~ 98 (157)
T cd04821 48 VKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALI 98 (157)
T ss_pred cCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEE
Confidence 3688998874432 12345554 3677899999999976
No 29
>PRK13017 dihydroxy-acid dehydratase; Provisional
Probab=41.03 E-value=1e+02 Score=29.06 Aligned_cols=99 Identities=12% Similarity=0.120 Sum_probs=54.9
Q ss_pred eEEEEEEEEEeecCcHHHHHHHhh----cCCCcEEEEeCCCCCccceechH---HHHHH-HHcCC--cEEEeeCccCCHH
Q 031057 37 VFSGPIVTLKVFEDNVLIREFLEE----KGNGRVLVVDGGGSLRCAILGGN---PVVQA-QNNGW--AGIVVNGCIRDVD 106 (166)
Q Consensus 37 ~~~G~A~Tv~~~~d~~~~~~~i~~----~~~G~VlVvd~~g~~~~a~~G~~---~a~~a-~~~G~--~G~VidG~vRD~~ 106 (166)
++-|||+-. .+.....++|+. .++|||+||-.-|....-=.-|+ ..+.+ ..+|. ..+|+||.--
T Consensus 420 ~~~GpA~VF---~see~a~~ai~~g~i~~~~gdVvVIRyeGPkGgPGMpEm~~l~~t~al~g~Gl~~VaLITDGRfS--- 493 (596)
T PRK13017 420 AFEGRAVVF---DGPEDYHARIDDPALDIDEHCILVIRGAGPVGYPGSAEVVNMQPPAALLKRGIRSLPCIGDGRQS--- 493 (596)
T ss_pred eEEEeEEEE---CCHHHHHHHHhCCCCCCCCCeEEEEeCCCCCCCCCCcchhhchhHHHHHhCCCCeeEEEcccCCC---
Confidence 678877544 344556677754 36677999987765332233353 23333 35566 6788888632
Q ss_pred HHhcCCccEEEeeeecCCCCCccc-eeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 107 EINGCDIGVRALASHPMKANKKGI-GEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 107 ~i~~~~~pv~a~g~~p~~~~~~~~-~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
| .++|.+- ....+ ...+-|| ..|+.||+|.-|.+.
T Consensus 494 -----G---at~G~~V---gHVsPEAa~GGPI----alV~dGD~I~IDi~~ 529 (596)
T PRK13017 494 -----G---TSGSPSI---LNASPEAAVGGGL----ALLRTGDRIRIDLNK 529 (596)
T ss_pred -----C---ccCCCee---EEEChhhccCCcE----EEEeCCCEEEEECCC
Confidence 1 1222110 00111 1123444 469999999999754
No 30
>PRK08211 putative dehydratase; Provisional
Probab=40.69 E-value=71 Score=30.33 Aligned_cols=62 Identities=16% Similarity=0.233 Sum_probs=39.0
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHHHHHHcC--C---cEEEeeCc
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNG--W---AGIVVNGC 101 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G--~---~G~VidG~ 101 (166)
.++-|||+ ++.+.....++|+ .+++|||+||-..|... .=.=|++...+.-+| . .++|+||.
T Consensus 467 ~~~~GpAr---VF~seeda~~AI~~g~I~~GdVvVIRyeGPkG-~GMpEml~~t~al~g~glG~~VALITDGR 535 (655)
T PRK08211 467 YRHTGRAR---VFTSEKSAIAAIKHGEIKAGDILVLIGGGPSG-TGMEETYQITSALKHLSFGKHVSLITDAR 535 (655)
T ss_pred eEEEEeEE---EECCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhhchhhhHhhcCCCCeEEEeccCC
Confidence 36777765 3445556667775 48999999998877543 222266554443333 3 67888886
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=38.24 E-value=77 Score=30.05 Aligned_cols=99 Identities=16% Similarity=0.226 Sum_probs=55.1
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHHHHHHc--CC---cEEEeeCccCCHHHH
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVVQAQNN--GW---AGIVVNGCIRDVDEI 108 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~--G~---~G~VidG~vRD~~~i 108 (166)
.++.|||+- +.+.....++|+ .+++|||+||-..|... .=.=|++...+.-+ |. ..+|+||.--
T Consensus 461 ~~~~GpArV---Fdsee~a~~AI~~g~I~~GdVvVIRyeGPkG-~GMpEml~~t~al~g~glG~~VALITDGRFS----- 531 (640)
T TIGR03432 461 YRHTGPARV---FSSEKSAIAAIKHGKIEAGDVLVLIGRGPSG-TGMEETYQVTSALKYLSFGKHVALITDARFS----- 531 (640)
T ss_pred eEEEEeEEE---ECCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhhcchhhHhhcCCCCeEEEecccCcC-----
Confidence 357777654 344455666675 58999999998877543 22235554443322 33 6688888632
Q ss_pred hcCCccEEEeeeecCCCCCccc-eeeeeeEEECCEEEccCCEEEEeCCc
Q 031057 109 NGCDIGVRALASHPMKANKKGI-GEKHVPITIGGTRISDGEWLYADTDG 156 (166)
Q Consensus 109 ~~~~~pv~a~g~~p~~~~~~~~-~~~~~pV~igGv~V~pGD~i~aD~dG 156 (166)
|. ++|.+- ....+ ...+-|| ..|+.||.|.-|.+.
T Consensus 532 ---G~---S~G~~I---GHVsPEAa~GGPI----alVrdGD~I~IDi~~ 567 (640)
T TIGR03432 532 ---GV---STGACI---GHVGPEALAGGPI----GKVRDGDLIEIIIDR 567 (640)
T ss_pred ---CC---CCCCEE---EEEChhhhCCCcE----EEEeCCCEEEEEcCC
Confidence 10 111110 00111 1123444 468999999988765
No 32
>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=37.92 E-value=68 Score=22.97 Aligned_cols=33 Identities=21% Similarity=0.484 Sum_probs=25.4
Q ss_pred CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 62 GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 62 ~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
-.|.|++|+.++ +. |. .....|+++|++|+|+.
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 22 43 56788999999999985
No 33
>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=37.11 E-value=64 Score=22.54 Aligned_cols=32 Identities=28% Similarity=0.644 Sum_probs=22.9
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|.|++++.++ + .|.+ ....|+++|++|+|+-
T Consensus 46 ~GkIvl~~~g~---~-~~~~-k~~~a~~~GA~gvii~ 77 (126)
T cd00538 46 KGKIVLVRRGG---C-SFSE-KVKNAQKAGAKAVIIY 77 (126)
T ss_pred cceEEEEECCC---c-CHHH-HHHHHHHCCCEEEEEE
Confidence 69999997543 1 2333 4566888999999983
No 34
>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=37.06 E-value=67 Score=23.88 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=26.0
Q ss_pred CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 62 GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 62 ~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
-.|.|++|+.++ |. | ...+..|+++|++++|+.
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 368999999653 33 3 567899999999999985
No 35
>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=35.89 E-value=37 Score=27.28 Aligned_cols=35 Identities=26% Similarity=0.466 Sum_probs=27.8
Q ss_pred HHHHHHHHcCCcEEEeeCccCCHHHHhcC-CccEEEe
Q 031057 83 NPVVQAQNNGWAGIVVNGCIRDVDEINGC-DIGVRAL 118 (166)
Q Consensus 83 ~~a~~a~~~G~~G~VidG~vRD~~~i~~~-~~pv~a~ 118 (166)
.|+.+|+.-|+.|+=++| +.|+.++++. ++||...
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 589999999999999995 5899999996 9999654
No 36
>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=35.71 E-value=3.3e+02 Score=26.80 Aligned_cols=103 Identities=20% Similarity=0.168 Sum_probs=61.4
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHH---HHhcCC
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVD---EINGCD 112 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~---~i~~~~ 112 (166)
...+|+++.. .+ .. +.....+++.|||...-...+.. ....+.|+|+.-.-+-+. -.+++|
T Consensus 397 G~a~G~v~~~---~~--~a-~~~~~~~~~~ILV~~~t~P~d~~----------~~~~a~Givt~~GG~tSHaAivAR~lg 460 (856)
T TIGR01828 397 GAATGKIVFS---AE--DA-VELAEKGKKVILVREETSPEDIE----------GMHVAEGILTARGGMTSHAAVVARGMG 460 (856)
T ss_pred CeEEEEEEEc---hH--HH-HHHhhcCCCEEEEECCCCHHHHh----------hhhhheEEEEccCCCcchHHHHHHHcC
Confidence 4577876543 11 11 11224566778888754332211 112468898876654433 245678
Q ss_pred ccEEEeeeecCCCCCccceeeeeeEEECCEEEccCCEEEEeC-CceEEe
Q 031057 113 IGVRALASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADT-DGILIS 160 (166)
Q Consensus 113 ~pv~a~g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~-dGVvvi 160 (166)
+|.-.. .....+.+-+..+.+++..++.||+|.-|. .|.|..
T Consensus 461 iP~VvG------~~~~~id~~~~~~~~~~~~l~~Gd~VtvDg~~G~V~~ 503 (856)
T TIGR01828 461 KCCVSG------CEELKINEEAKTFTIGGRVFHEGDIISIDGSTGEIYL 503 (856)
T ss_pred CCEEEc------ccccccccccceeeeCCeEecCCCEEEEECCCCEEEE
Confidence 887421 112233445566788999999999999995 688874
No 37
>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=35.54 E-value=83 Score=23.76 Aligned_cols=37 Identities=22% Similarity=0.267 Sum_probs=25.3
Q ss_pred CCCcEEEEeCCCCC-ccceechHHHHHHHHcCCcEEEee
Q 031057 62 GNGRVLVVDGGGSL-RCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 62 ~~G~VlVvd~~g~~-~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
-.|.|.+|+.++.. ....|.+- ...|+++|++|+|+.
T Consensus 55 ~~GkIaLI~RG~c~~~~~~f~~K-v~~A~~aGA~avIIy 92 (139)
T cd04817 55 MAGKICLIERGGNSKSVYPEIDK-VKACQNAGAIAAIVY 92 (139)
T ss_pred cCccEEEEECCCCCCCcccHHHH-HHHHHHCCCeEEEEE
Confidence 36999999976421 11225554 455999999999994
No 38
>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=35.14 E-value=69 Score=25.01 Aligned_cols=37 Identities=14% Similarity=0.172 Sum_probs=30.4
Q ss_pred HHHHHcCCcEEEeeCccCCHHHHhcCCccEEEeeeec
Q 031057 86 VQAQNNGWAGIVVNGCIRDVDEINGCDIGVRALASHP 122 (166)
Q Consensus 86 ~~a~~~G~~G~VidG~vRD~~~i~~~~~pv~a~g~~p 122 (166)
..+..+++.|+|+.+.-.+..++++.|+||...+..+
T Consensus 49 ~~~~~~~~dgiii~~~~~~~~~~~~~gipvv~~~~~~ 85 (265)
T cd06291 49 EMLRQNQVDGIIAGTHNLGIEEYENIDLPIVSFDRYL 85 (265)
T ss_pred HHHHHcCCCEEEEecCCcCHHHHhcCCCCEEEEeCCC
Confidence 4577889999999887667778888899999887653
No 39
>KOG2666 consensus UDP-glucose/GDP-mannose dehydrogenase [Carbohydrate transport and metabolism; Signal transduction mechanisms]
Probab=34.35 E-value=30 Score=30.51 Aligned_cols=36 Identities=14% Similarity=0.137 Sum_probs=30.9
Q ss_pred HHHHHcCCcEEEeeCc-cCCHHHHhcCCccEEEeeee
Q 031057 86 VQAQNNGWAGIVVNGC-IRDVDEINGCDIGVRALASH 121 (166)
Q Consensus 86 ~~a~~~G~~G~VidG~-vRD~~~i~~~~~pv~a~g~~ 121 (166)
+......--+.|.||. +=|.++|+++||-||+-|..
T Consensus 433 rI~~~MqkPAfiFDGR~ilD~~kLreIGF~v~sIGk~ 469 (481)
T KOG2666|consen 433 RIFDNMQKPAFIFDGRNILDHEKLREIGFIVYSIGKP 469 (481)
T ss_pred HHHHhccCCeEEecchhhccHHHHhhcceEEEEcCCC
Confidence 4455667788999998 99999999999999999864
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=33.58 E-value=28 Score=25.55 Aligned_cols=39 Identities=10% Similarity=0.093 Sum_probs=32.1
Q ss_pred ccceechHHHHHHHHcCCcEEEeeCccCCHHHHhc-CCcc
Q 031057 76 RCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEING-CDIG 114 (166)
Q Consensus 76 ~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~-~~~p 114 (166)
++++..+++..+|.++|.....+.|...|-+++++ +++|
T Consensus 108 d~g~a~~nl~LaA~~~Glgs~~~~~~~~~~~~~~~~l~ip 147 (160)
T cd02135 108 AAGAAIQNLLLAAHALGFGAVWRTGWAAYDPAVREALGLA 147 (160)
T ss_pred HHHHHHHHHHHHHHHCCCCeEeecCCcccCHHHHHHhCCC
Confidence 57889999999999999999988887666666666 4776
No 41
>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=33.53 E-value=77 Score=22.73 Aligned_cols=32 Identities=25% Similarity=0.437 Sum_probs=24.0
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|+|+++..++. .|.+ ....|+++|++|+|+-
T Consensus 43 ~GkIvLv~rg~c----~f~~-K~~~A~~aGA~avIi~ 74 (122)
T cd04816 43 KGAIVLVDRGGC----PFAD-KQKVAAARGAVAVIVV 74 (122)
T ss_pred CCeEEEEECCCC----CHHH-HHHHHHHCCCcEEEEE
Confidence 689999986532 2544 4567999999999984
No 42
>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=32.62 E-value=90 Score=22.09 Aligned_cols=33 Identities=30% Similarity=0.537 Sum_probs=23.8
Q ss_pred CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 62 GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 62 ~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
-.|.|++++.++ + .| ......|++.|++|+|+.
T Consensus 39 v~GkIvL~~rg~---c-~f-~~k~~~a~~aGA~gvIi~ 71 (118)
T cd04818 39 FAGKIALIDRGT---C-NF-TVKVLNAQNAGAIAVIVA 71 (118)
T ss_pred CCCEEEEEECCC---C-CH-HHHHHHHHHCCCeEEEEE
Confidence 469999997543 2 23 345667888999999994
No 43
>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=32.53 E-value=1.5e+02 Score=23.48 Aligned_cols=81 Identities=15% Similarity=0.117 Sum_probs=44.9
Q ss_pred EEEEEEeecCcHHHHHHHhhcCC--CcEE-EEeCCCCCccceech----HH---HHHHHHcCCcEEEeeCccCCHHHHhc
Q 031057 41 PIVTLKVFEDNVLIREFLEEKGN--GRVL-VVDGGGSLRCAILGG----NP---VVQAQNNGWAGIVVNGCIRDVDEING 110 (166)
Q Consensus 41 ~A~Tv~~~~d~~~~~~~i~~~~~--G~Vl-Vvd~~g~~~~a~~G~----~~---a~~a~~~G~~G~VidG~vRD~~~i~~ 110 (166)
-++||........+.++++.... ..++ |....+. ...-|+. .. +..++..|..|.|+. -.++.++++
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 56677766555556666655432 2344 4433332 1211342 22 345556677788854 334555554
Q ss_pred C--CccEEEeeeecCC
Q 031057 111 C--DIGVRALASHPMK 124 (166)
Q Consensus 111 ~--~~pv~a~g~~p~~ 124 (166)
. +|+.++-|..+.+
T Consensus 155 ~~~~~~~vtPGI~~~g 170 (213)
T TIGR01740 155 FTGDFLILTPGIRLQS 170 (213)
T ss_pred hcCCceEEeCCcCCCC
Confidence 4 7899999988764
No 44
>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=31.20 E-value=82 Score=22.86 Aligned_cols=32 Identities=25% Similarity=0.636 Sum_probs=24.5
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|.|++|+.++ | .|.+- +..|+++|++++|+-
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 58999999653 2 36554 666999999999994
No 45
>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=30.86 E-value=97 Score=22.51 Aligned_cols=36 Identities=22% Similarity=0.156 Sum_probs=26.4
Q ss_pred CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeC
Q 031057 62 GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNG 100 (166)
Q Consensus 62 ~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG 100 (166)
-.|.|++++.+... ..+ ......|+++|++|+|+-.
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 47999999876431 112 3567889999999999974
No 46
>PRK08296 hypothetical protein; Provisional
Probab=29.88 E-value=91 Score=29.32 Aligned_cols=89 Identities=21% Similarity=0.218 Sum_probs=49.8
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHHHHhcCCccE
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEINGCDIGV 115 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~~~pv 115 (166)
..+.|+++-++-. +-+...++|+|||...-....... -..+.|+|++-.-.-+...
T Consensus 508 G~v~G~vrvv~~~-------~~~~~~~~g~ILV~~~tdP~~~~~----------~~~~~GiVte~Gg~~SHaA------- 563 (603)
T PRK08296 508 GVVEGPARVIRSA-------DELSEVQEGEILVCPVTSPSWAPI----------FAKIKATVTDIGGVMSHAA------- 563 (603)
T ss_pred CeEEEEEEEeCCH-------HHHHhccCceEEEeCCCCHHHHHH----------HHHheEEEEecCCCcchHH-------
Confidence 3566776655421 123567899999987544322221 1557888887443222210
Q ss_pred EEeeeecCCCCCccceeeeeeEEECC----EEEccCCEEEEeC-CceEEe
Q 031057 116 RALASHPMKANKKGIGEKHVPITIGG----TRISDGEWLYADT-DGILIS 160 (166)
Q Consensus 116 ~a~g~~p~~~~~~~~~~~~~pV~igG----v~V~pGD~i~aD~-dGVvvi 160 (166)
.--.+.++|..+|= ..++.||.|.-|. .|.|.+
T Consensus 564 ------------IvARe~GIPaVvgv~~at~~l~dG~~V~vDg~~G~V~i 601 (603)
T PRK08296 564 ------------IVCREYGLPAVVGTGNATKRIKTGQRLRVDGTKGVVTI 601 (603)
T ss_pred ------------HHHHHcCCCEEEcCccHhhhcCCCCEEEEECCCCEEEE
Confidence 11123344433331 3578899999997 788775
No 47
>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=28.75 E-value=95 Score=22.54 Aligned_cols=32 Identities=34% Similarity=0.560 Sum_probs=24.2
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|.|++|+.++ | .|.+- +..|+++|++++|+-
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 68899998643 2 36554 566999999999995
No 48
>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=28.64 E-value=1.2e+02 Score=19.68 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=26.3
Q ss_pred HHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEE
Q 031057 53 LIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGI 96 (166)
Q Consensus 53 ~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~ 96 (166)
...++++++++|++|.|-.. ....-+.+...++..|..=+
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 34689999999998766432 22344566667776666543
No 49
>PRK09054 phosphogluconate dehydratase; Validated
Probab=28.52 E-value=1.4e+02 Score=28.08 Aligned_cols=99 Identities=21% Similarity=0.317 Sum_probs=54.1
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHh--hcCCCcEEEEeCCCCCccceechHHHHH-----HHHcCC-cEEEeeCccCCHHH
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLE--EKGNGRVLVVDGGGSLRCAILGGNPVVQ-----AQNNGW-AGIVVNGCIRDVDE 107 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~--~~~~G~VlVvd~~g~~~~a~~G~~~a~~-----a~~~G~-~G~VidG~vRD~~~ 107 (166)
.++-|||+- +.+.....++++ ++.+|+|+||-..|... .=.=|++... .+.+|. ..+|+||.--
T Consensus 442 ~~~~GpA~V---Fdsee~~~~Ai~~g~l~~g~VvViR~eGPkg-~GMpEm~~~Tp~l~~L~~~Gl~VALITDGRfS---- 513 (603)
T PRK09054 442 RVIEAPARV---FDSQEEVQAAFKAGELDRDFVVVVRFQGPKA-NGMPELHKLTPPLGVLQDRGFKVALVTDGRMS---- 513 (603)
T ss_pred cEEEeeEEE---ECCHHHHHHHHhCCCCCCCcEEEEeCCCCCC-CCchhhhcccchhHHHHhCCCeEEEeccCccC----
Confidence 345555543 334456667776 57899999998777543 2222665543 344454 5678888632
Q ss_pred HhcCCccEEEe-eeecCCCCCccceeeeeeEEECCEEEccCCEEEEeCC
Q 031057 108 INGCDIGVRAL-ASHPMKANKKGIGEKHVPITIGGTRISDGEWLYADTD 155 (166)
Q Consensus 108 i~~~~~pv~a~-g~~p~~~~~~~~~~~~~pV~igGv~V~pGD~i~aD~d 155 (166)
-.-.-+++- .++|= ...+-|| ..|+.||+|--|..
T Consensus 514 --GaS~~~~~igHVsPE-------Aa~GGPI----AlV~dGD~I~iD~~ 549 (603)
T PRK09054 514 --GASGKVPAAIHVTPE-------ALDGGPI----AKVRDGDIIRLDAE 549 (603)
T ss_pred --CcCCCCCEEEEEChh-------hccCCcE----EEEeCCCEEEEECC
Confidence 101111111 12221 1123344 47999999999974
No 50
>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=28.17 E-value=2.2e+02 Score=22.04 Aligned_cols=64 Identities=14% Similarity=0.249 Sum_probs=42.1
Q ss_pred ccccCCCeeEEEEEEEEEee--cCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 29 FQIYGRRQVFSGPIVTLKVF--EDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 29 ~~~~~~~~~~~G~A~Tv~~~--~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
|..|.++..+-|+.+=+.+- +|-..+.+-+ --.|.|+++--++ .|=+.....|+++|+.|+|+.
T Consensus 6 f~aYS~sG~Vtg~~VYvNyG~~eDf~~L~~~V--~v~GkIvi~RyG~-----~~RG~Kv~~A~~~GA~GviIY 71 (153)
T cd02131 6 YAAYSAKGTLQAEVVDVQYGSVEDLRRIRDNM--NVTNQIALLKLGQ-----APLLYKLSLLEEAGFGGVLLY 71 (153)
T ss_pred cceeCCCCceEEEEEEecCCCHHHHHHHHhCC--CccceEEEEeccC-----cchHHHHHHHHHCCCeEEEEe
Confidence 55566666777888877765 2323333322 2468888776553 244567888999999999994
No 51
>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=27.71 E-value=96 Score=23.49 Aligned_cols=33 Identities=18% Similarity=0.359 Sum_probs=24.9
Q ss_pred CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 62 GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 62 ~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
..|.|++|+.++ +.|.+- +..|+++|++|+|+-
T Consensus 66 ~~g~IvLV~RG~----CtF~~K-v~nAq~aGA~avII~ 98 (153)
T cd02123 66 SGSFIVLIRRGN----CSFETK-VRNAQRAGYKAAIVY 98 (153)
T ss_pred CCCeEEEEECCC----CCHHHH-HHHHHHCCCCEEEEE
Confidence 358899999654 247664 666899999999993
No 52
>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=26.87 E-value=1.1e+02 Score=22.48 Aligned_cols=32 Identities=28% Similarity=0.473 Sum_probs=24.4
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|.|++|+.++ | .|.+- +..|+++|++|+|+-
T Consensus 44 ~gkIaLV~RG~---C-sF~~K-~~~Aq~aGA~aVII~ 75 (120)
T cd02129 44 KGKAVVVMRGN---C-TFYEK-ARLAQSLGAEGLLIV 75 (120)
T ss_pred CCeEEEEECCC---c-CHHHH-HHHHHHCCCCEEEEE
Confidence 69999999764 2 35554 555999999999983
No 53
>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=26.79 E-value=1.1e+02 Score=22.51 Aligned_cols=31 Identities=16% Similarity=0.497 Sum_probs=22.8
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEe
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVV 98 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vi 98 (166)
.|.|++++.++ + .|. .....|+++|++|+|+
T Consensus 47 ~GkIvL~~rg~---c-~~~-~K~~~a~~aGA~gvIi 77 (143)
T cd02133 47 KGKIALIQRGE---I-TFV-EKIANAKAAGAVGVII 77 (143)
T ss_pred cceEEEEECCC---C-CHH-HHHHHHHHCCCeEEEE
Confidence 68999998543 2 233 3566788899999999
No 54
>COG4821 Uncharacterized protein containing SIS (Sugar ISomerase) phosphosugar binding domain [General function prediction only]
Probab=26.55 E-value=1.4e+02 Score=24.66 Aligned_cols=38 Identities=21% Similarity=0.135 Sum_probs=28.5
Q ss_pred HhhcCCCcEEEE-eCCCCCccceechHHHHHHHHcCCcEEEe
Q 031057 58 LEEKGNGRVLVV-DGGGSLRCAILGGNPVVQAQNNGWAGIVV 98 (166)
Q Consensus 58 i~~~~~G~VlVv-d~~g~~~~a~~G~~~a~~a~~~G~~G~Vi 98 (166)
..++++|||+++ .++|. -..+=.+|..++++|++=+++
T Consensus 99 ~~~i~~~DVliviSnSGr---Npvpie~A~~~rekGa~vI~v 137 (243)
T COG4821 99 RLQIRPNDVLIVISNSGR---NPVPIEVAEYAREKGAKVIAV 137 (243)
T ss_pred HhcCCCCCEEEEEeCCCC---CCcchHHHHHHHhcCCeEEEE
Confidence 457899999955 55553 345668899999999987765
No 55
>PRK10765 nitroreductase A; Provisional
Probab=26.22 E-value=50 Score=26.79 Aligned_cols=39 Identities=18% Similarity=0.428 Sum_probs=30.4
Q ss_pred ccceechHHHHHHHHcCCcEEEeeCccCCHHHHhc-CCcc
Q 031057 76 RCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEING-CDIG 114 (166)
Q Consensus 76 ~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~-~~~p 114 (166)
++++...++..+|...|...+.+-|.-.|.+++++ +++|
T Consensus 107 Dagiaaqnl~laA~slGLGs~~ig~~~~~~~~v~~~L~LP 146 (240)
T PRK10765 107 DTAIMAQNALLAAESLGLGGVYIGGLRNNIEAVTELLKLP 146 (240)
T ss_pred HHHHHHHHHHHHHHHcCCCEEeeCccccCHHHHHHHhCcC
Confidence 56788899999999999999988765446777766 3655
No 56
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=25.59 E-value=1.4e+02 Score=21.80 Aligned_cols=40 Identities=25% Similarity=0.395 Sum_probs=19.9
Q ss_pred HHHHhh--cCCCcEEEE-eCCCCCccceechHHHHHHHHcCCcEEE
Q 031057 55 REFLEE--KGNGRVLVV-DGGGSLRCAILGGNPVVQAQNNGWAGIV 97 (166)
Q Consensus 55 ~~~i~~--~~~G~VlVv-d~~g~~~~a~~G~~~a~~a~~~G~~G~V 97 (166)
.+.++. .+|||+|++ ..+|.. ..++ -.+..|+++|+.=+.
T Consensus 93 ~~~~~~~~~~~gDvli~iS~SG~s-~~vi--~a~~~Ak~~G~~vIa 135 (138)
T PF13580_consen 93 RQLLALYDIRPGDVLIVISNSGNS-PNVI--EAAEEAKERGMKVIA 135 (138)
T ss_dssp HHHHHHTT--TT-EEEEEESSS-S-HHHH--HHHHHHHHTT-EEEE
T ss_pred HHHHHHcCCCCCCEEEEECCCCCC-HHHH--HHHHHHHHCCCEEEE
Confidence 344455 899999855 666643 2211 345677777775443
No 57
>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=25.27 E-value=91 Score=24.02 Aligned_cols=20 Identities=20% Similarity=0.546 Sum_probs=16.8
Q ss_pred EEEccCCEEEEeCCceEEec
Q 031057 142 TRISDGEWLYADTDGILISR 161 (166)
Q Consensus 142 v~V~pGD~i~aD~dGVvviP 161 (166)
..+.++++|+.|++|++.++
T Consensus 84 ~~l~~~~~vi~D~~~~i~~~ 103 (174)
T PF03483_consen 84 VELDEGDLVICDDNGIISIA 103 (174)
T ss_dssp EEECTTCEEEECTTCEEEET
T ss_pred eeccceEEEEEECCCCEeec
Confidence 46688999999999998654
No 58
>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=24.46 E-value=64 Score=24.73 Aligned_cols=38 Identities=18% Similarity=0.147 Sum_probs=31.8
Q ss_pred cceechHHHHHHHHcCCcEEEeeCccCCHHHHhc-CCcc
Q 031057 77 CAILGGNPVVQAQNNGWAGIVVNGCIRDVDEING-CDIG 114 (166)
Q Consensus 77 ~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~-~~~p 114 (166)
+++.-.++..+|.+.|...+.+.|...|.+++++ +|+|
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 5877
No 59
>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=22.83 E-value=50 Score=22.75 Aligned_cols=11 Identities=18% Similarity=0.238 Sum_probs=7.2
Q ss_pred EEEccCCEEEE
Q 031057 142 TRISDGEWLYA 152 (166)
Q Consensus 142 v~V~pGD~i~a 152 (166)
-.++|||+|.|
T Consensus 67 ~~FrpGDIVrA 77 (82)
T PF10447_consen 67 DCFRPGDIVRA 77 (82)
T ss_dssp GT--SSSEEEE
T ss_pred hccCCCCEEEE
Confidence 45799999987
No 60
>PRK05849 hypothetical protein; Provisional
Probab=22.53 E-value=5.2e+02 Score=25.23 Aligned_cols=86 Identities=9% Similarity=0.137 Sum_probs=48.4
Q ss_pred CeeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHH---HHhcC
Q 031057 35 RQVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVD---EINGC 111 (166)
Q Consensus 35 ~~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~---~i~~~ 111 (166)
..++.|+++-++- + . +...+|+|||+..-......+ ..++++|+|++-.-+-+. -.+++
T Consensus 688 ~g~v~g~v~v~~~----~---~--~~~~~G~Ilv~~~tdPg~~~l---------f~~~i~g~Vte~Gg~~SH~AI~ARe~ 749 (783)
T PRK05849 688 QKRVEATVADLDN----D---N--DDDLEGKIVCIENADPGYDWL---------FTKGIAGLITCYGGANSHMAIRAAEL 749 (783)
T ss_pred CCEEEEEEEEecC----h---h--hcCCCCCEEEeCCCCccchHH---------HhhheeEEEEcCCCcccHHHHHHHHc
Confidence 3578888776542 1 1 344589999998664322111 134678888765433222 22344
Q ss_pred CccEEEeeeecCCCCCccceeeeeeEEEC--CE---EEccCCEEEEeC-CceEEe
Q 031057 112 DIGVRALASHPMKANKKGIGEKHVPITIG--GT---RISDGEWLYADT-DGILIS 160 (166)
Q Consensus 112 ~~pv~a~g~~p~~~~~~~~~~~~~pV~ig--Gv---~V~pGD~i~aD~-dGVvvi 160 (166)
|+|. .+| +. .+..||.|.-|. .|.|.+
T Consensus 750 gIPa----------------------vvg~~~~~~~~~~~g~~v~vDg~~G~v~i 782 (783)
T PRK05849 750 GLPA----------------------VIGVGEELFEKWLKAKRILLDCASQRIEI 782 (783)
T ss_pred CCCE----------------------EEccCcchhhhccCCCEEEEECCCCEEEe
Confidence 5554 332 22 367788888887 455543
No 61
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=22.41 E-value=2.2e+02 Score=18.19 Aligned_cols=53 Identities=13% Similarity=0.190 Sum_probs=37.1
Q ss_pred CcHHHHHHHhhc--CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHHHHhc
Q 031057 50 DNVLIREFLEEK--GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEING 110 (166)
Q Consensus 50 d~~~~~~~i~~~--~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~ 110 (166)
+...+..+++.. .+.++++|.-.-..+ ...|++.|+..+.+.....+.++++.
T Consensus 6 ~p~~~~~a~~~~~~~~~~~~~VGD~~~~D--------i~~a~~~G~~~ilV~tG~~~~~~~~~ 60 (75)
T PF13242_consen 6 SPGMLEQALKRLGVDPSRCVMVGDSLETD--------IEAAKAAGIDTILVLTGVYSPEDLEK 60 (75)
T ss_dssp SHHHHHHHHHHHTSGGGGEEEEESSTTTH--------HHHHHHTTSEEEEESSSSSCCCGHHH
T ss_pred cHHHHHHHHHHcCCCHHHEEEEcCCcHhH--------HHHHHHcCCcEEEECCCCCCHHHHhc
Confidence 344556666654 577888886442233 35788999999999998888877764
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=22.39 E-value=1.6e+02 Score=21.61 Aligned_cols=32 Identities=19% Similarity=0.423 Sum_probs=24.3
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.|.|++|+.++ | .|.+ ....|+++|++++|+.
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 58899999654 2 3444 5677999999999985
No 63
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=22.29 E-value=43 Score=25.08 Aligned_cols=24 Identities=17% Similarity=0.224 Sum_probs=21.1
Q ss_pred ccceechHHHHHHHHcCCcEEEee
Q 031057 76 RCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 76 ~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
.....|.+.+..|+++|+.-+|+|
T Consensus 78 aA~~vG~lia~ra~~kgi~~vVfd 101 (125)
T COG0256 78 AAYLVGKLIAERALAKGIEEVVFD 101 (125)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEc
Confidence 557889999999999999999855
No 64
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=22.07 E-value=2e+02 Score=22.57 Aligned_cols=38 Identities=5% Similarity=0.038 Sum_probs=26.8
Q ss_pred HHHHHHHcCCcEEEeeCccCC---HHHHhcCCccEEEeeee
Q 031057 84 PVVQAQNNGWAGIVVNGCIRD---VDEINGCDIGVRALASH 121 (166)
Q Consensus 84 ~a~~a~~~G~~G~VidG~vRD---~~~i~~~~~pv~a~g~~ 121 (166)
+.......++.|+|+.+.-.+ ++++.+.++||.+.+..
T Consensus 56 ~~~~l~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~~~~ 96 (275)
T cd06295 56 LARYLASGRADGVILIGQHDQDPLPERLAETGLPFVVWGRP 96 (275)
T ss_pred HHHHHHhCCCCEEEEeCCCCChHHHHHHHhCCCCEEEECCc
Confidence 334445689999999875444 45566789999887753
No 65
>cd02146 NfsA_FRP This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as an electron donor. Oxygen-insensitive nitroreductase, such as NfsA protein in Escherichia coli, catalyzes reduction of nitrocompounds using NADPH as electron donor.
Probab=22.04 E-value=68 Score=25.61 Aligned_cols=39 Identities=15% Similarity=0.250 Sum_probs=31.8
Q ss_pred ccceechHHHHHHHHcCCcEEEeeCccCCHHHHhcC-Ccc
Q 031057 76 RCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEINGC-DIG 114 (166)
Q Consensus 76 ~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~~-~~p 114 (166)
++++..+.+..+|.+.|.....+.|...+.+++++. ++|
T Consensus 109 d~g~a~~nl~LaA~~lGLgtc~ig~~~~~~~~v~~~L~lp 148 (229)
T cd02146 109 DAGLAAQNAAVAAESLGLGIVYIGGIRNDPEAVIELLNLP 148 (229)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEcccccCHHHHHHHhCCC
Confidence 568889999999999999999998876676666663 655
No 66
>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=21.99 E-value=1.7e+02 Score=20.50 Aligned_cols=34 Identities=21% Similarity=0.364 Sum_probs=23.1
Q ss_pred CCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEee
Q 031057 62 GNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVN 99 (166)
Q Consensus 62 ~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~Vid 99 (166)
-.|+|++++.+.. .-+- ..+..+++.|+.|+|+-
T Consensus 50 v~GkIVlc~~~~~---~~~~-~k~~~~~~~GA~gvI~~ 83 (126)
T cd02120 50 VKGKIVLCDRGGN---TSRV-AKGDAVKAAGGAGMILA 83 (126)
T ss_pred ccccEEEEeCCCC---ccHH-HHHHHHHHcCCcEEEEE
Confidence 3599999976531 1122 23566888999999993
No 67
>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=21.69 E-value=1.8e+02 Score=21.78 Aligned_cols=69 Identities=19% Similarity=0.209 Sum_probs=39.7
Q ss_pred eeEEEEEEEEEeecC---c------HHHHHHHh----hcCCCcEEEEeCCC-CC-----------ccceechHHHHHHHH
Q 031057 36 QVFSGPIVTLKVFED---N------VLIREFLE----EKGNGRVLVVDGGG-SL-----------RCAILGGNPVVQAQN 90 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d---~------~~~~~~i~----~~~~G~VlVvd~~g-~~-----------~~a~~G~~~a~~a~~ 90 (166)
.+++|+++-+.+..+ . ..+.++++ .+++||+|++..+- +. +...+..-.+.....
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 459999999998761 1 12333433 56899999998763 11 124455567777779
Q ss_pred cCCcEEEeeCccCC
Q 031057 91 NGWAGIVVNGCIRD 104 (166)
Q Consensus 91 ~G~~G~VidG~vRD 104 (166)
+|++++-+|..-=|
T Consensus 155 ~~v~~vG~D~~s~d 168 (171)
T PF04199_consen 155 RGVKAVGIDTPSVD 168 (171)
T ss_dssp CT-SEEEESSSSS-
T ss_pred CCCCEEEECCCCCC
Confidence 99999988876433
No 68
>cd02992 PDI_a_QSOX PDIa family, Quiescin-sulfhydryl oxidase (QSOX) subfamily; QSOX is a eukaryotic protein containing an N-terminal redox active TRX domain, similar to that of PDI, and a small C-terminal flavin adenine dinucleotide (FAD)-binding domain homologous to the yeast ERV1p protein. QSOX oxidizes thiol groups to disulfides like PDI, however, unlike PDI, this oxidation is accompanied by the reduction of oxygen to hydrogen peroxide. QSOX is localized in high concentrations in cells with heavy secretory load and prefers peptides and proteins as substrates, not monothiols like glutathione. Inside the cell, QSOX is found in the endoplasmic reticulum and Golgi. The flow of reducing equivalents in a QSOX-catalyzed reaction goes from the dithiol substrate - dithiol of the QSOX TRX domain - dithiols of the QSOX ERV1p domain - FAD - oxygen.
Probab=21.38 E-value=43 Score=23.72 Aligned_cols=20 Identities=30% Similarity=0.441 Sum_probs=17.7
Q ss_pred cCCcEEEeeCccCCHHHHhc
Q 031057 91 NGWAGIVVNGCIRDVDEING 110 (166)
Q Consensus 91 ~G~~G~VidG~vRD~~~i~~ 110 (166)
.+..|...||.+|+++++++
T Consensus 91 ~~~~~~~~~~~~~~~~~~~~ 110 (114)
T cd02992 91 EATDGLKQEGPERDVNELRE 110 (114)
T ss_pred cCCCCCcccCCccCHHHHHH
Confidence 47789999999999999876
No 69
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=21.31 E-value=57 Score=22.74 Aligned_cols=27 Identities=19% Similarity=0.559 Sum_probs=13.5
Q ss_pred eeeeeEEECCEEEccCCEEEEeCCceEE
Q 031057 132 EKHVPITIGGTRISDGEWLYADTDGILI 159 (166)
Q Consensus 132 ~~~~pV~igGv~V~pGD~i~aD~dGVvv 159 (166)
...-|..--|+.|++||+|.+ -||.=+
T Consensus 28 ~~~sPL~~pGv~v~~GD~I~a-InG~~v 54 (88)
T PF14685_consen 28 NARSPLAQPGVDVREGDYILA-INGQPV 54 (88)
T ss_dssp S-B-GGGGGS----TT-EEEE-ETTEE-
T ss_pred cccCCccCCCCCCCCCCEEEE-ECCEEC
Confidence 445677778999999999987 344433
No 70
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=21.09 E-value=2e+02 Score=22.24 Aligned_cols=37 Identities=14% Similarity=0.117 Sum_probs=27.3
Q ss_pred HHHHHHcCCcEEEeeCccCC---HHHHhcCCccEEEeeee
Q 031057 85 VVQAQNNGWAGIVVNGCIRD---VDEINGCDIGVRALASH 121 (166)
Q Consensus 85 a~~a~~~G~~G~VidG~vRD---~~~i~~~~~pv~a~g~~ 121 (166)
...+..+++.|+|+.+.-.+ ++++++.++|+...+..
T Consensus 48 ~~~l~~~~vdgiIi~~~~~~~~~~~~l~~~~ipvV~~~~~ 87 (265)
T cd06299 48 LDNLLSQRVDGIIVVPHEQSAEQLEDLLKRGIPVVFVDRE 87 (265)
T ss_pred HHHHHhcCCCEEEEcCCCCChHHHHHHHhCCCCEEEEecc
Confidence 34467889999999875434 46667789999887764
No 71
>COG5448 Uncharacterized conserved protein [Function unknown]
Probab=20.99 E-value=1.7e+02 Score=22.99 Aligned_cols=31 Identities=16% Similarity=0.353 Sum_probs=26.9
Q ss_pred eeeeEEECCEEEccCCEEEEeCCceEEecCc
Q 031057 133 KHVPITIGGTRISDGEWLYADTDGILISRAE 163 (166)
Q Consensus 133 ~~~pV~igGv~V~pGD~i~aD~dGVvviP~~ 163 (166)
=-+-|.+.||...||++++==.+|+|..|..
T Consensus 108 gSV~v~V~gVk~~~~af~VD~~tGiV~l~~~ 138 (184)
T COG5448 108 GSVMVYVNGVKTAPGAFIVDYNTGIVTLPSA 138 (184)
T ss_pred CeEEEEEccEEcCCcceEeeccCCeEEeCCC
Confidence 3467889999999999999999999998853
No 72
>cd00845 MPP_UshA_N_like Escherichia coli UshA-like family, N-terminal metallophosphatase domain. This family includes the bacterial enzyme UshA, and related enzymes including SoxB, CpdB, YhcR, and CD73. All members have a similar domain architecture which includes an N-terminal metallophosphatase domain and a C-terminal nucleotidase domain. The N-terminal metallophosphatase domain belongs to a large superfamily of distantly related metallophosphatases (MPPs) that includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The conserved domain is a double beta-sheet sandwich
Probab=20.77 E-value=4.3e+02 Score=20.84 Aligned_cols=57 Identities=14% Similarity=0.247 Sum_probs=39.3
Q ss_pred CcEEEEeCCCCCcccee-----chHHHHHHHHcCCcEEEeeCccCCHH--------HHhcCCccEEEeeeec
Q 031057 64 GRVLVVDGGGSLRCAIL-----GGNPVVQAQNNGWAGIVVNGCIRDVD--------EINGCDIGVRALASHP 122 (166)
Q Consensus 64 G~VlVvd~~g~~~~a~~-----G~~~a~~a~~~G~~G~VidG~vRD~~--------~i~~~~~pv~a~g~~p 122 (166)
.+.++++++.......+ |..+.....+.|..-+++ |- .|.+ .+.+.+||+.+.+...
T Consensus 37 ~~~l~v~~GD~~~~~~~~~~~~~~~~~~~l~~~g~d~~~~-GN-He~d~g~~~l~~~~~~~~~~~l~aNv~~ 106 (252)
T cd00845 37 ENTLLLDAGDNFDGSPPSTATKGEANIELMNALGYDAVTI-GN-HEFDYGLDALAELYKDANFPVLSANLYD 106 (252)
T ss_pred CCeEEEeCCccCCCccchhccCCcHHHHHHHhcCCCEEee-cc-ccccccHHHHHHHHHhCCCCEEEEeeec
Confidence 57787877755444443 668888888999887765 53 4443 4667899999877653
No 73
>PRK10828 putative oxidoreductase; Provisional
Probab=20.75 E-value=66 Score=24.71 Aligned_cols=39 Identities=13% Similarity=0.096 Sum_probs=32.1
Q ss_pred ccceechHHHHHHHHcCCcEEEeeCccCCHHHHhc-CCcc
Q 031057 76 RCAILGGNPVVQAQNNGWAGIVVNGCIRDVDEING-CDIG 114 (166)
Q Consensus 76 ~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~~i~~-~~~p 114 (166)
++++.=.++..+|.++|...+.+-|...|.+++++ +|+|
T Consensus 110 d~~~a~~nl~LaA~a~GlGs~w~~~~~~~~~~~~~~L~ip 149 (183)
T PRK10828 110 SAGCAVMAMQMAAVAQGFNGIWRSGAWTESPVVREAFGCR 149 (183)
T ss_pred HHHHHHHHHHHHHHHCCCCeEeecCCCccCHHHHHHcCCC
Confidence 45666788999999999999988777778888888 5877
No 74
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=20.44 E-value=1.6e+02 Score=21.59 Aligned_cols=33 Identities=27% Similarity=0.399 Sum_probs=23.9
Q ss_pred CCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeC
Q 031057 63 NGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNG 100 (166)
Q Consensus 63 ~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG 100 (166)
.+.|++|+.++ +.|.+ -+..|+++|++++|+--
T Consensus 42 ~~~IvLv~RG~----C~F~~-K~~~Aq~aGA~avII~n 74 (127)
T cd02125 42 RPVILLLDRGG----CFFTL-KAWNAQQAGAAAVLVAD 74 (127)
T ss_pred CceEEEEECCC----cCHHH-HHHHHHHCCCcEEEEEE
Confidence 45688888543 33555 47788999999999953
No 75
>PRK05865 hypothetical protein; Provisional
Probab=20.20 E-value=3.1e+02 Score=26.96 Aligned_cols=87 Identities=13% Similarity=0.056 Sum_probs=51.5
Q ss_pred eeEEEEEEEEEeecCcHHHHHHHhhcCCCcEEEEeCCCCCccceechHHHHHHHHcCCcEEEeeCccCCHH---HHhcCC
Q 031057 36 QVFSGPIVTLKVFEDNVLIREFLEEKGNGRVLVVDGGGSLRCAILGGNPVVQAQNNGWAGIVVNGCIRDVD---EINGCD 112 (166)
Q Consensus 36 ~~~~G~A~Tv~~~~d~~~~~~~i~~~~~G~VlVvd~~g~~~~a~~G~~~a~~a~~~G~~G~VidG~vRD~~---~i~~~~ 112 (166)
..+.|+++-++ + +.++..++|+|||...-...... .-..++|+|++-.-.-+. --+++|
T Consensus 744 G~v~G~vrvv~--~------~~~~~~~~g~ILVa~~tdp~~~~----------~~~~a~giVte~Gg~~SH~AIvARe~g 805 (854)
T PRK05865 744 GRVRGRVRIVR--P------ETIDDLQPGEILVAEVTDVGYTA----------AFCYAAAVVTELGGPMSHAAVVAREFG 805 (854)
T ss_pred CccEEEEEEec--H------HHhhhcCCCeEEEeCCCCHHHHH----------HHHHheEEEeccCCCccHHHHHHHHcC
Confidence 34667776664 1 22467899999998754332211 126678888875433222 123345
Q ss_pred ccEEEeeeecCCCCCccceeeeeeEEECC----EEEccCCEEEEeC-CceEEecC
Q 031057 113 IGVRALASHPMKANKKGIGEKHVPITIGG----TRISDGEWLYADT-DGILISRA 162 (166)
Q Consensus 113 ~pv~a~g~~p~~~~~~~~~~~~~pV~igG----v~V~pGD~i~aD~-dGVvviP~ 162 (166)
+|. .++- ..++.||.|.-|. .|.|.+-+
T Consensus 806 IPa----------------------Vvgv~~at~~l~dG~~V~vDg~~G~V~~l~ 838 (854)
T PRK05865 806 FPC----------------------VVDAQGATRFLPPGALVEVDGATGEIHVVE 838 (854)
T ss_pred CCE----------------------EEccccHhhcCCCCCEEEEECCCcEEEEec
Confidence 554 3321 2567899999887 78887643
Done!