Query 031448
Match_columns 159
No_of_seqs 192 out of 1152
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 14:15:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031448.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031448hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02227 sigpep_I_bact signal 100.0 8.2E-42 1.8E-46 248.1 16.2 138 15-153 2-163 (163)
2 KOG0171 Mitochondrial inner me 100.0 2.7E-38 5.8E-43 223.2 11.8 143 15-157 15-163 (176)
3 PRK10861 signal peptidase I; P 100.0 5.5E-37 1.2E-41 241.8 17.8 142 11-153 60-305 (324)
4 KOG1568 Mitochondrial inner me 100.0 1E-33 2.2E-38 199.7 9.6 130 26-159 24-158 (174)
5 PRK13838 conjugal transfer pil 99.9 9.2E-26 2E-30 165.2 14.8 91 56-147 41-170 (176)
6 PRK13884 conjugal transfer pep 99.9 1.8E-25 4E-30 164.0 15.8 128 8-147 5-174 (178)
7 TIGR02771 TraF_Ti conjugative 99.9 1.1E-25 2.3E-30 164.3 13.8 110 27-147 18-167 (171)
8 PF10502 Peptidase_S26: Signal 99.9 4.1E-25 8.9E-30 156.2 3.3 85 64-148 20-136 (138)
9 TIGR02754 sod_Ni_protease nick 99.9 1.4E-23 3.1E-28 138.1 10.1 89 37-147 2-90 (90)
10 cd06530 S26_SPase_I The S26 Ty 99.9 1.7E-21 3.6E-26 126.8 9.4 84 35-145 2-85 (85)
11 TIGR02228 sigpep_I_arch signal 99.8 9.7E-20 2.1E-24 131.3 12.8 115 7-146 2-119 (158)
12 COG0681 LepB Signal peptidase 99.7 5E-16 1.1E-20 112.3 11.4 129 11-145 7-144 (166)
13 COG4959 TraF Type IV secretory 99.7 3.3E-16 7.1E-21 110.0 8.8 109 34-151 30-170 (173)
14 PF00717 Peptidase_S24: Peptid 99.3 1.2E-11 2.5E-16 77.2 8.1 57 37-99 1-57 (70)
15 cd06462 Peptidase_S24_S26 The 99.3 3.9E-11 8.4E-16 77.0 9.7 83 35-145 2-84 (84)
16 KOG3342 Signal peptidase I [In 99.3 3.2E-11 7E-16 84.8 9.4 118 8-147 16-145 (180)
17 COG2932 Predicted transcriptio 99.0 5.3E-09 1.1E-13 79.0 10.8 89 34-151 124-212 (214)
18 cd06529 S24_LexA-like Peptidas 99.0 1.2E-08 2.6E-13 65.0 9.6 52 35-94 2-53 (81)
19 PRK10276 DNA polymerase V subu 98.6 1.5E-06 3.3E-11 61.4 11.8 85 33-150 51-136 (139)
20 TIGR00498 lexA SOS regulatory 98.5 3.2E-06 7E-11 63.0 11.9 88 32-152 110-198 (199)
21 PRK12423 LexA repressor; Provi 98.5 3.1E-06 6.8E-11 63.4 11.3 84 34-149 115-199 (202)
22 PRK00215 LexA repressor; Valid 98.5 3.8E-06 8.2E-11 62.9 11.8 85 33-150 118-203 (205)
23 COG1974 LexA SOS-response tran 97.9 0.00039 8.5E-09 52.1 11.6 88 33-152 112-200 (201)
24 COG0681 LepB Signal peptidase 86.5 0.99 2.2E-05 32.0 3.5 13 64-76 83-95 (166)
25 PF05257 CHAP: CHAP domain; I 84.3 3.6 7.7E-05 27.9 5.4 38 64-101 61-99 (124)
26 PF07039 DUF1325: SGF29 tudor- 77.3 14 0.00031 25.7 6.4 56 67-122 1-60 (130)
27 TIGR02594 conserved hypothetic 75.0 24 0.00051 24.5 7.1 55 64-143 72-126 (129)
28 PF00238 Ribosomal_L14: Riboso 67.9 34 0.00073 23.5 6.4 84 35-139 21-105 (122)
29 PF10000 ACT_3: ACT domain; I 65.0 4.2 9.1E-05 25.3 1.4 17 41-58 12-28 (72)
30 PF10030 DUF2272: Uncharacteri 61.0 40 0.00088 24.9 6.1 38 64-101 92-144 (183)
31 COG3602 Uncharacterized protei 58.8 5.5 0.00012 27.2 1.1 17 41-58 12-28 (134)
32 COG0093 RplN Ribosomal protein 58.1 58 0.0013 22.3 8.5 25 114-139 81-105 (122)
33 PF07423 DUF1510: Protein of u 57.6 17 0.00037 27.6 3.8 25 4-28 8-32 (217)
34 COG0361 InfA Translation initi 57.4 14 0.0003 23.3 2.7 20 50-72 49-68 (75)
35 PF10377 ATG11: Autophagy-rela 56.4 64 0.0014 22.3 6.3 14 64-77 41-54 (129)
36 smart00439 BAH Bromo adjacent 54.6 59 0.0013 21.3 8.4 16 135-150 70-85 (120)
37 PF06890 Phage_Mu_Gp45: Bacter 54.4 81 0.0018 22.9 6.7 38 61-100 70-110 (162)
38 TIGR00008 infA translation ini 52.7 18 0.0004 22.2 2.7 11 66-76 45-55 (68)
39 cd04714 BAH_BAHCC1 BAH, or Bro 52.1 22 0.00047 24.2 3.3 28 65-92 3-30 (121)
40 cd04456 S1_IF1A_like S1_IF1A_l 51.0 18 0.0004 22.8 2.6 11 66-76 39-49 (78)
41 CHL00057 rpl14 ribosomal prote 50.8 80 0.0017 21.7 7.6 28 112-140 79-106 (122)
42 PRK13884 conjugal transfer pep 49.4 1E+02 0.0022 22.5 7.3 52 1-58 1-61 (178)
43 cd04712 BAH_DCM_I BAH, or Brom 49.1 87 0.0019 21.6 8.1 15 138-152 88-102 (130)
44 PF01176 eIF-1a: Translation i 49.0 18 0.00039 21.8 2.2 28 50-77 24-53 (65)
45 PF01426 BAH: BAH domain; Int 48.0 23 0.0005 23.3 2.9 26 66-91 3-28 (119)
46 cd05793 S1_IF1A S1_IF1A: Trans 45.4 22 0.00048 22.3 2.3 12 65-76 38-49 (77)
47 PF14085 DUF4265: Domain of un 45.3 94 0.002 21.0 6.3 47 51-99 11-58 (117)
48 PF12459 DUF3687: D-Ala-teicho 44.5 56 0.0012 18.1 3.6 28 1-28 1-28 (42)
49 cd04721 BAH_plant_1 BAH, or Br 43.7 64 0.0014 22.3 4.6 27 65-93 7-33 (130)
50 smart00652 eIF1a eukaryotic tr 43.4 25 0.00054 22.4 2.4 40 36-76 12-54 (83)
51 TIGR01067 rplN_bact ribosomal 42.0 1.1E+02 0.0025 21.0 8.5 28 112-140 79-106 (122)
52 PF10913 DUF2706: Protein of u 40.2 43 0.00094 19.5 2.7 44 14-58 4-47 (60)
53 cd04717 BAH_polybromo BAH, or 39.8 41 0.0009 22.6 3.2 27 65-91 3-29 (121)
54 cd03695 CysN_NodQ_II CysN_NodQ 37.6 97 0.0021 19.2 4.4 33 64-98 25-65 (81)
55 PRK04012 translation initiatio 37.6 35 0.00075 22.7 2.4 11 66-76 60-70 (100)
56 cd05792 S1_eIF1AD_like S1_eIF1 37.2 30 0.00064 21.9 1.9 38 38-76 9-49 (78)
57 cd06555 ASCH_PF0470_like ASC-1 36.2 1.1E+02 0.0025 20.5 4.8 28 63-91 29-56 (109)
58 PF14801 GCD14_N: tRNA methylt 35.9 52 0.0011 19.3 2.6 13 65-77 5-17 (54)
59 smart00002 PLP Myelin proteoli 34.5 12 0.00025 22.5 -0.2 20 126-145 22-41 (60)
60 PF05382 Amidase_5: Bacterioph 34.1 60 0.0013 23.1 3.3 38 37-77 50-87 (145)
61 PF13759 2OG-FeII_Oxy_5: Putat 33.4 63 0.0014 20.9 3.2 24 65-94 69-92 (101)
62 COG0234 GroS Co-chaperonin Gro 32.3 1.5E+02 0.0033 19.5 6.9 70 49-123 5-88 (96)
63 cd03698 eRF3_II_like eRF3_II_l 31.6 1.3E+02 0.0028 18.6 4.3 34 64-99 25-66 (83)
64 PRK12442 translation initiatio 30.9 68 0.0015 20.8 2.8 11 66-76 47-57 (87)
65 TIGR00523 eIF-1A eukaryotic/ar 30.4 58 0.0013 21.5 2.6 10 66-75 58-67 (99)
66 COG5131 URM1 Ubiquitin-like pr 30.3 68 0.0015 20.9 2.7 29 47-76 58-91 (96)
67 PF12911 OppC_N: N-terminal TM 30.2 62 0.0014 18.3 2.5 9 4-12 5-13 (56)
68 cd04089 eRF3_II eRF3_II: domai 30.0 1.4E+02 0.003 18.4 4.3 34 64-99 24-65 (82)
69 cd04709 BAH_MTA BAH, or Bromo 29.1 85 0.0018 22.7 3.5 24 128-151 85-108 (164)
70 PF00278 Orn_DAP_Arg_deC: Pyri 28.8 94 0.002 20.3 3.5 25 50-76 69-93 (116)
71 PRK05483 rplN 50S ribosomal pr 28.6 2E+02 0.0043 19.8 8.2 27 113-140 80-106 (122)
72 PRK00276 infA translation init 27.0 94 0.002 19.0 3.0 12 65-76 46-57 (72)
73 cd04710 BAH_fungalPHD BAH, or 27.0 1.1E+02 0.0023 21.4 3.6 28 64-91 10-37 (135)
74 PF09163 Form-deh_trans: Forma 26.8 1E+02 0.0023 17.2 2.8 25 7-31 7-31 (44)
75 TIGR03170 flgA_cterm flagella 26.1 2E+02 0.0044 19.1 6.0 67 46-115 48-118 (122)
76 TIGR02219 phage_NlpC_fam putat 26.1 1.1E+02 0.0024 21.0 3.5 13 64-76 75-87 (134)
77 PF11302 DUF3104: Protein of u 26.0 1.7E+02 0.0038 18.3 4.0 30 65-94 5-39 (75)
78 PF14118 YfzA: YfzA-like prote 26.0 61 0.0013 21.3 2.0 33 13-53 12-44 (94)
79 KOG4146 Ubiquitin-like protein 25.6 1E+02 0.0022 20.3 3.0 36 36-76 56-96 (101)
80 PTZ00414 10 kDa heat shock pro 25.1 2.1E+02 0.0046 18.9 7.6 27 45-73 10-36 (100)
81 CHL00010 infA translation init 25.1 1.1E+02 0.0023 19.1 3.0 12 65-76 46-57 (78)
82 COG1188 Ribosome-associated he 25.0 2.2E+02 0.0047 19.0 4.6 29 63-94 46-74 (100)
83 PRK10507 bifunctional glutathi 24.8 4.1E+02 0.0088 23.7 7.4 57 64-120 110-177 (619)
84 PF15428 Imm14: Immunity prote 24.7 1.3E+02 0.0029 20.2 3.7 22 67-90 1-22 (129)
85 smart00831 Cation_ATPase_N Cat 24.6 1.5E+02 0.0033 17.1 4.0 22 4-25 37-58 (64)
86 PF13144 SAF_2: SAF-like 24.5 2.8E+02 0.0061 20.1 7.7 69 45-116 121-193 (196)
87 PF09285 Elong-fact-P_C: Elong 24.1 1.6E+02 0.0035 17.3 4.1 38 41-87 19-56 (56)
88 TIGR02390 RNA_pol_rpoA1 DNA-di 23.9 1E+02 0.0023 28.4 3.8 36 64-99 406-443 (868)
89 smart00663 RPOLA_N RNA polymer 23.7 2.1E+02 0.0046 22.8 5.1 36 64-99 197-234 (295)
90 PRK14533 groES co-chaperonin G 23.5 2.2E+02 0.0047 18.5 7.5 82 49-145 5-89 (91)
91 PF02736 Myosin_N: Myosin N-te 23.4 1.1E+02 0.0025 16.5 2.6 21 79-99 9-29 (42)
92 PF01878 EVE: EVE domain; Int 22.8 1.2E+02 0.0025 21.0 3.2 15 64-78 38-52 (143)
93 PF01568 Molydop_binding: Moly 22.3 2.2E+02 0.0048 18.2 4.7 36 52-90 30-65 (110)
94 TIGR01657 P-ATPase-V P-type AT 22.2 6.3E+02 0.014 23.9 8.6 23 50-77 236-258 (1054)
95 cd04370 BAH BAH, or Bromo Adja 22.1 1.2E+02 0.0026 19.7 3.0 77 65-151 3-89 (123)
96 KOG0901 60S ribosomal protein 22.0 3E+02 0.0065 19.6 5.0 18 123-140 113-130 (145)
97 PF00166 Cpn10: Chaperonin 10 21.9 2.3E+02 0.0049 18.2 5.0 88 49-145 4-93 (93)
98 PLN02289 ribulose-bisphosphate 21.9 87 0.0019 23.0 2.3 27 107-133 96-122 (176)
99 KOG2915 tRNA(1-methyladenosine 21.8 1.3E+02 0.0028 24.1 3.4 15 132-146 42-56 (314)
100 PF11623 DUF3252: Protein of u 21.7 1.4E+02 0.0031 17.3 2.8 18 91-108 3-20 (53)
101 KOG3858 Ephrin, ligand for Eph 21.5 1.7E+02 0.0037 22.6 4.0 33 35-77 26-58 (233)
102 TIGR03673 rpl14p_arch 50S ribo 21.3 1.1E+02 0.0024 21.4 2.7 31 109-140 86-116 (131)
103 COG1096 Predicted RNA-binding 21.2 3.1E+02 0.0067 20.4 5.1 33 63-95 59-91 (188)
104 cd03694 GTPBP_II Domain II of 21.2 2.2E+02 0.0048 17.7 4.2 36 64-99 25-70 (87)
105 COG2375 ViuB Siderophore-inter 21.0 1E+02 0.0022 24.3 2.7 30 90-124 122-153 (265)
106 cd04451 S1_IF1 S1_IF1: Transla 20.8 1.1E+02 0.0025 17.9 2.4 12 65-76 40-51 (64)
107 PTZ00054 60S ribosomal protein 20.3 3.2E+02 0.007 19.3 7.4 30 110-140 95-124 (139)
108 PRK02565 photosystem II reacti 20.3 54 0.0012 17.8 0.8 30 14-43 10-39 (39)
109 PF15057 DUF4537: Domain of un 20.1 1.7E+02 0.0037 20.0 3.5 27 64-90 54-80 (124)
110 COG3655 Predicted transcriptio 20.0 85 0.0018 19.6 1.7 14 64-77 55-68 (73)
No 1
>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type. A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes.
Probab=100.00 E-value=8.2e-42 Score=248.05 Aligned_cols=138 Identities=34% Similarity=0.511 Sum_probs=122.0
Q ss_pred HHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448 15 TLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD 94 (159)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd 94 (159)
+..++++++++++++.|+++.+.|.|+||+|||+ +||++++++..+...++++||+|+|+.|.+.++.++|||+|+|||
T Consensus 2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~-~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~~~~~~iKRVig~pGd 80 (163)
T TIGR02227 2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLK-EGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYVKRVIGLPGD 80 (163)
T ss_pred HHHHHHHHHHHHHHHhhEEEEEEECCcccccchh-CCCEEEEEEeEcCCCCCCCCcEEEEecCCCCCceeEEEEEecCCC
Confidence 4566667778888999999999999999999999 999999999877668999999999999877788999999999999
Q ss_pred EEEEeCCC----------C---C-----------CCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448 95 RVTYFKPR----------N---G-----------DSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW 150 (159)
Q Consensus 95 ~v~i~~~~----------~---~-----------~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~ 150 (159)
+|+++++. . . ....+.+||+|+|||+|||+.+|.|||+||+|++++|+|||.+++|
T Consensus 81 ~v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk~~~~~~ 160 (163)
T TIGR02227 81 KVEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGKVSFVFY 160 (163)
T ss_pred EEEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEEEEEEEC
Confidence 99998631 0 0 1124578999999999999999999999999999999999999999
Q ss_pred CCC
Q 031448 151 PPN 153 (159)
Q Consensus 151 p~~ 153 (159)
|++
T Consensus 161 p~~ 163 (163)
T TIGR02227 161 PFD 163 (163)
T ss_pred CCC
Confidence 985
No 2
>KOG0171 consensus Mitochondrial inner membrane protease, subunit IMP1 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.7e-38 Score=223.18 Aligned_cols=143 Identities=42% Similarity=0.701 Sum_probs=124.0
Q ss_pred HHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448 15 TLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD 94 (159)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd 94 (159)
.......+++++....|+.++..++|.||+||++..||+++.+++++.++.+++||||++..|.++++.++|||+|+|||
T Consensus 15 ~~~~~~~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD 94 (176)
T KOG0171|consen 15 FCSEIAYAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGD 94 (176)
T ss_pred hHHHHHHHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCCchhhhhheeeccCCc
Confidence 33445556667777789999999999999999985677777799999999999999999999999999999999999999
Q ss_pred EEEEeCCCC------CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCcc
Q 031448 95 RVTYFKPRN------GDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGS 157 (159)
Q Consensus 95 ~v~i~~~~~------~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~~ 157 (159)
-+++.+... ..+..+..||+||+||+|||+++|.|||+|||+|...|+||+.+++||.++.+.
T Consensus 95 ~v~v~~~~~~~n~~~e~~~~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~ 163 (176)
T KOG0171|consen 95 LVEVHDGPLVVNDLVEKFSTPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSG 163 (176)
T ss_pred eEEEecCCcccchhhhhccceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchhcce
Confidence 888875332 223356899999999999999999999999999999999999999999988764
No 3
>PRK10861 signal peptidase I; Provisional
Probab=100.00 E-value=5.5e-37 Score=241.81 Aligned_cols=142 Identities=34% Similarity=0.466 Sum_probs=123.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccC------------CCCCCCCeEEEEecCC
Q 031448 11 ALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHR------------VGRLGPGDIVFVRSPV 78 (159)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~------------~~~~~~GDiVvf~~p~ 78 (159)
++.++..++.+++++++++.|+++++.|+|+||+|||. .||+++++|+++. ..+++|||||+|+.|.
T Consensus 60 ~~~~~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~-~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~ 138 (324)
T PRK10861 60 WLETGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPE 138 (324)
T ss_pred HHHHHHHHHHHHhHHHHHHhhEEEEEEECCCcCcCccc-CCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCC
Confidence 56677777788888899999999999999999999999 9999999998764 2579999999999998
Q ss_pred CCCceEEEEEEEeCCCEEEEe--C------CCC-----------------------------------------------
Q 031448 79 DPNKIVTKRIVGVEGDRVTYF--K------PRN----------------------------------------------- 103 (159)
Q Consensus 79 ~~~~~~vkRVi~~pGd~v~i~--~------~~~----------------------------------------------- 103 (159)
+++..+||||+|+|||+|+++ + +..
T Consensus 139 ~~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (324)
T PRK10861 139 DPKLDYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETK 218 (324)
T ss_pred CCCCcEEEEeeecCCcEEEEEeCCCEEEEcCccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 888899999999999999986 2 100
Q ss_pred ------C-----------------C--C------------cceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 031448 104 ------G-----------------D--S------------CHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAF 146 (159)
Q Consensus 104 ------~-----------------~--~------------~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~ 146 (159)
. . . ..+++||+|+||++|||+++|.||||||+|++++|+|+|.
T Consensus 219 ~~~~~~~~~~E~l~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G~a~ 298 (324)
T PRK10861 219 ENGIRLSERKETLGDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGKAT 298 (324)
T ss_pred cccccceeEEEecCCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEEEEE
Confidence 0 0 0 1355899999999999999999999999999999999999
Q ss_pred EEEeCCC
Q 031448 147 FRVWPPN 153 (159)
Q Consensus 147 ~~~~p~~ 153 (159)
.++|+++
T Consensus 299 ~i~~s~d 305 (324)
T PRK10861 299 AIWMSFE 305 (324)
T ss_pred EEEEEcC
Confidence 9999876
No 4
>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1e-33 Score=199.69 Aligned_cols=130 Identities=39% Similarity=0.690 Sum_probs=114.2
Q ss_pred HHHhhceEEeEEEeCCCCccccCC-----CCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeC
Q 031448 26 HVTNHYLWSPTLVFGPSMLPTLNL-----TGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFK 100 (159)
Q Consensus 26 ~~~~~~~~~~~~v~~~SM~Ptl~~-----~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~ 100 (159)
..+...+.....+.|.||.|+++| ..|+|++.++.-...++.+||+|+|.+|++++++++|||+|+|||.+...+
T Consensus 24 ~t~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~~ 103 (174)
T KOG1568|consen 24 LTFSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTED 103 (174)
T ss_pred eeeeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCChhheeeeeeecccccEeccCC
Confidence 344455778899999999999996 239999999875445689999999999999999999999999999987733
Q ss_pred CCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCccCC
Q 031448 101 PRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG 159 (159)
Q Consensus 101 ~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~~~~ 159 (159)
.....+.+|+|||||.|||...|.|||.||||+...|+|+|++++||+.+++.++
T Consensus 104 ----~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~ 158 (174)
T KOG1568|consen 104 ----EKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLD 158 (174)
T ss_pred ----CCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhc
Confidence 3357889999999999999999999999999999999999999999999988763
No 5
>PRK13838 conjugal transfer pilin processing protease TraF; Provisional
Probab=99.94 E-value=9.2e-26 Score=165.18 Aligned_cols=91 Identities=29% Similarity=0.344 Sum_probs=70.5
Q ss_pred EEecccCCCCCCCCeEEEEecCCCC-------------------CceEEEEEEEeCCCEEEEeC-----CCC--------
Q 031448 56 AEYVSHRVGRLGPGDIVFVRSPVDP-------------------NKIVTKRIVGVEGDRVTYFK-----PRN-------- 103 (159)
Q Consensus 56 v~~~~~~~~~~~~GDiVvf~~p~~~-------------------~~~~vkRVi~~pGd~v~i~~-----~~~-------- 103 (159)
+.++.....++++||+|+|+.|.+. ...++|||+|+|||+|++++ +..
T Consensus 41 ~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~~v~iNg~~~~~~~~~~ 120 (176)
T PRK13838 41 LWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGGSVSIDGRPLPSSSVRR 120 (176)
T ss_pred EEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECCEEEECCEEcccccccc
Confidence 3343333478999999999987542 13599999999999999874 110
Q ss_pred -------CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEE
Q 031448 104 -------GDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFF 147 (159)
Q Consensus 104 -------~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~ 147 (159)
.......++|+|+|||+|||. +|+||||||+|++++|+|+|.-
T Consensus 121 ~~~~g~~l~~~~~~~vp~g~~fvlgd~~-~S~DSRy~G~V~~~~I~G~a~p 170 (176)
T PRK13838 121 RDGEGRPLTPFPGGVVPPGHLFLHSSFA-GSYDSRYFGPVPASGLLGLARP 170 (176)
T ss_pred ccccCCcCCCCCccCcCCCeEEEECCCC-CCCcccccCcccHHHeEEEEEE
Confidence 001224689999999999985 8999999999999999999974
No 6
>PRK13884 conjugal transfer peptidase TraF; Provisional
Probab=99.94 E-value=1.8e-25 Score=163.99 Aligned_cols=128 Identities=16% Similarity=0.133 Sum_probs=86.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCC-------
Q 031448 8 AKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDP------- 80 (159)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~------- 80 (159)
+|++..+++.+.++++++..+. +........++|+ |.|=+.+ .. .++++||+|+|+.|+..
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~N~T~S~-----P~glY~~-~~-----~~~~~Gd~V~f~~p~~~~~~~a~~ 72 (178)
T PRK13884 5 LKRITAGVAVAGLAALLLAALG-YAAGARVNTTKSI-----PVGLYWT-SS-----APVEKGAYVLFCPPQRGVFDDAKE 72 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HhCcEEEECCCCC-----cceEEEE-eC-----CCCCCCCEEEEeCCchHHHHHHHh
Confidence 4445544444444433333222 2222333344554 3455554 22 58999999999976521
Q ss_pred ------------CceEEEEEEEeCCCEEEEeCCC--------------C---------CCCcceEEecCCeEEEEcCCCC
Q 031448 81 ------------NKIVTKRIVGVEGDRVTYFKPR--------------N---------GDSCHTVVVPKGHVWIQGDNLY 125 (159)
Q Consensus 81 ------------~~~~vkRVi~~pGd~v~i~~~~--------------~---------~~~~~~~~vp~~~~~v~gdn~~ 125 (159)
..+++|||+|+|||+|+++++. . ......+++|+|+||++|||++
T Consensus 73 rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l~~~~~~~~~lp~g~~fvlgd~~~ 152 (178)
T PRK13884 73 RGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVNGELLPLSKPILADGAGRPLPRYQANSYTLGESELLLMSDVSA 152 (178)
T ss_pred CCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEECCEEccccccccccccCCcccccCCCceEECCCEEEEECCCCC
Confidence 1379999999999999998631 0 0011245899999999999999
Q ss_pred CCCCCCccccccCCCeEEEEEE
Q 031448 126 ASRDSRQFGPVPYGLIEGKAFF 147 (159)
Q Consensus 126 ~s~DSR~~G~V~~~~I~G~v~~ 147 (159)
+|+||||||+|++++|+|++.-
T Consensus 153 ~S~DSRYfG~V~~~~I~G~~~P 174 (178)
T PRK13884 153 TSFDGRYFGPINRSQIKTVIRP 174 (178)
T ss_pred CCCcccccCcccHHHEEEEEEE
Confidence 9999999999999999999874
No 7
>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF. This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.
Probab=99.94 E-value=1.1e-25 Score=164.28 Aligned_cols=110 Identities=25% Similarity=0.315 Sum_probs=82.5
Q ss_pred HHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCC-------------------ceEEEE
Q 031448 27 VTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPN-------------------KIVTKR 87 (159)
Q Consensus 27 ~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~-------------------~~~vkR 87 (159)
+...|........++|| |.|-+. ..+ ..+++|||+|+|+.|.+.. ..++||
T Consensus 18 ~~~~~~~~~~~N~T~S~-----P~g~Y~-~~~----~~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKR 87 (171)
T TIGR02771 18 ILGLYCVGARINTTKSL-----PLGLYW-TTS----SKPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKR 87 (171)
T ss_pred hhhcceeeEEEECCCCC-----cceEEE-eCC----CCCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEE
Confidence 34445544555666666 345555 322 2589999999999875332 279999
Q ss_pred EEEeCCCEEEEeCCC--------C-------------CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 031448 88 IVGVEGDRVTYFKPR--------N-------------GDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAF 146 (159)
Q Consensus 88 Vi~~pGd~v~i~~~~--------~-------------~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~ 146 (159)
|+|+|||+|+++++. . .....+.++|+| ||++|||+++|.||||||+|++++|+|||.
T Consensus 88 ViglpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~ 166 (171)
T TIGR02771 88 VLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVK 166 (171)
T ss_pred EEEeCCCEEEEECCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEE
Confidence 999999999997621 0 011236889999 999999999999999999999999999997
Q ss_pred E
Q 031448 147 F 147 (159)
Q Consensus 147 ~ 147 (159)
-
T Consensus 167 p 167 (171)
T TIGR02771 167 P 167 (171)
T ss_pred E
Confidence 4
No 8
>PF10502 Peptidase_S26: Signal peptidase, peptidase S26 ; InterPro: IPR019533 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents a conserved region found in the S26A family of serine endopeptidases, which function in the processing of newly-synthesised secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal signal peptides as proteins are translocated across membranes. ; PDB: 3S04_B 1KN9_C 1B12_D 3IIQ_B 1T7D_A.
Probab=99.91 E-value=4.1e-25 Score=156.20 Aligned_cols=85 Identities=34% Similarity=0.468 Sum_probs=31.9
Q ss_pred CCCCCCeEEEEecCCC------------CCceEEEEEEEeCCCEEEEeCCC--------------------CCCCcceEE
Q 031448 64 GRLGPGDIVFVRSPVD------------PNKIVTKRIVGVEGDRVTYFKPR--------------------NGDSCHTVV 111 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~------------~~~~~vkRVi~~pGd~v~i~~~~--------------------~~~~~~~~~ 111 (159)
..+++||+|+|+.|+. .+..++|||+|+|||+|++++.. ......+.+
T Consensus 20 ~~~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~ 99 (138)
T PF10502_consen 20 DKIERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGT 99 (138)
T ss_dssp ---------------------------------------------------------------------S-T----TEEE
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceE
Confidence 3589999999998852 24589999999999999998632 111225899
Q ss_pred ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEE
Q 031448 112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFR 148 (159)
Q Consensus 112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~ 148 (159)
||+|+|||+|||+.+|+||||||+|++++|+|+|.-.
T Consensus 100 vp~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl 136 (138)
T PF10502_consen 100 VPEGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPL 136 (138)
T ss_dssp --TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEE
T ss_pred eCCCEEEEecCCCCCccccCEecccCHHHEEEEEEEE
Confidence 9999999999999999999999999999999999864
No 9
>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease. Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.
Probab=99.90 E-value=1.4e-23 Score=138.12 Aligned_cols=89 Identities=39% Similarity=0.595 Sum_probs=77.9
Q ss_pred EEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCe
Q 031448 37 LVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGH 116 (159)
Q Consensus 37 ~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~ 116 (159)
.|.|+||+|+|+ +||++++++.......+++||+|+|+.|.++++.++||++++++ ++
T Consensus 2 ~V~g~SM~P~l~-~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~~~~~~vkRv~~~~~---------------------~~ 59 (90)
T TIGR02754 2 KVTGVSMSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVDD---------------------NG 59 (90)
T ss_pred EeeCCCccCccC-CCCEEEEEEccccCCCCCCCeEEEEecCCCCcceEEEEeeEEcC---------------------Ce
Confidence 689999999999 99999999854333456789999999887667899999999764 48
Q ss_pred EEEEcCCCCCCCCCCccccccCCCeEEEEEE
Q 031448 117 VWIQGDNLYASRDSRQFGPVPYGLIEGKAFF 147 (159)
Q Consensus 117 ~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~ 147 (159)
+|++|||+.+|.|||++|+|+..+|+|+|+|
T Consensus 60 ~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~~ 90 (90)
T TIGR02754 60 LFLLGDNPKASTDSRQLGPVPRSLLLGKVLW 90 (90)
T ss_pred EEEeCCCCCCCCcccccCCCcHHHEEEEEEC
Confidence 9999999999999999999999999999864
No 10
>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa
Probab=99.86 E-value=1.7e-21 Score=126.83 Aligned_cols=84 Identities=44% Similarity=0.678 Sum_probs=75.0
Q ss_pred eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecC
Q 031448 35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPK 114 (159)
Q Consensus 35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~ 114 (159)
.+.+.|+||+|++. .||++++++.......+++||+|+|+.+.+++..++|||++
T Consensus 2 ~~~v~g~SM~P~i~-~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~~~~~~vkRv~~------------------------ 56 (85)
T cd06530 2 PVVVPGGSMEPTLQ-PGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRVIG------------------------ 56 (85)
T ss_pred eeEEcCCCCcCccc-CCCEEEEEEeecccCCCCCCCEEEEeCCCCCCCEEEEEEEE------------------------
Confidence 57899999999998 99999999865333479999999999876556899999987
Q ss_pred CeEEEEcCCCCCCCCCCccccccCCCeEEEE
Q 031448 115 GHVWIQGDNLYASRDSRQFGPVPYGLIEGKA 145 (159)
Q Consensus 115 ~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v 145 (159)
||+.|||+.+|.|||++|+++.++|+|++
T Consensus 57 --~~~~gDn~~ns~d~~~~g~~~~~~i~G~~ 85 (85)
T cd06530 57 --YFVLGDNRNNSLDSRYWGPVPEDDIVGKV 85 (85)
T ss_pred --EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence 99999999899999999999999999985
No 11
>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type. This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.
Probab=99.83 E-value=9.7e-20 Score=131.26 Aligned_cols=115 Identities=25% Similarity=0.272 Sum_probs=86.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhceE---EeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCce
Q 031448 7 LAKEALTQTLTFARFFCLFHVTNHYLW---SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKI 83 (159)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~ 83 (159)
+.++++.+++.++++++++..+....+ ..+.|.|+||+||++ +||++++++... .++++||+|+|+.|.++ ..
T Consensus 2 ~~~~ii~~~~~~~l~~~~~~~l~~~~~~~~p~v~V~g~SM~Ptl~-~GD~vlv~~~~~--~~~~~GDIVvf~~~~~~-~~ 77 (158)
T TIGR02228 2 KISNVIYFILIILLVILLLYGLVSKASGPDPVVVVLSGSMEPTFN-TGDLILVTGADP--NDIQVGDVITYKSPGFN-TP 77 (158)
T ss_pred hhHHHHHHHHHHHHHHHHHHHheeeccCCCcEEEEcCCCCcCCcc-CCCEEEEEeccc--CCCCCCCEEEEEECCCC-cc
Confidence 456777777666666666555443333 233499999999998 999999998543 68999999999987643 78
Q ss_pred EEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 031448 84 VTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAF 146 (159)
Q Consensus 84 ~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~ 146 (159)
++|||+++.++. .+..|++.|||+ ...| .++|+.++|+|++.
T Consensus 78 iihRVi~v~~~~-----------------g~~~~~tkGDnN-~~~D---~~~v~~~~IiG~v~ 119 (158)
T TIGR02228 78 VTHRVIEINNSG-----------------GELGFITKGDNN-PAPD---GEPVPSENVIGKYL 119 (158)
T ss_pred EEEEEEEEECCC-----------------CcEEEEEEecCC-CCCC---cccCCHHHEEEEEE
Confidence 999999987430 012488889997 4556 58999999999998
No 12
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=99.68 E-value=5e-16 Score=112.32 Aligned_cols=129 Identities=25% Similarity=0.326 Sum_probs=97.5
Q ss_pred HHHHHHHHHHHHHHHHHH--hhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEE
Q 031448 11 ALTQTLTFARFFCLFHVT--NHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRI 88 (159)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRV 88 (159)
...+...++.++++++++ +.++++.+.|.|+||+||++ .||++++++.++....+..+|++ ..|......++||+
T Consensus 7 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~-~GD~v~v~k~~~~~~~~~~~~~~--~~~~~~~~~~~kr~ 83 (166)
T COG0681 7 FLELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLN-VGDRVLVKKFSYGFGKLKVPDII--VLPAVVEGDLIKRV 83 (166)
T ss_pred HHHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccc-cCCEEEEEeccccccCCccceee--ecCCCCCcceEEEe
Confidence 445666666666666666 89999999999999999999 99999999999887889999998 44455678899999
Q ss_pred EEeCCCEEEEeCCCCCCCcceEEecCCeEEEEc-------CCCCCCCCCCccccccCCCeEEEE
Q 031448 89 VGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQG-------DNLYASRDSRQFGPVPYGLIEGKA 145 (159)
Q Consensus 89 i~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~g-------dn~~~s~DSR~~G~V~~~~I~G~v 145 (159)
++++||.+.++++.... ...+|++..++.+ +....+.+++.++.......+.++
T Consensus 84 ~~~~GD~i~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (166)
T COG0681 84 IGLRGDIVVFKDDRLYV---VPIIPRVYGLVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV 144 (166)
T ss_pred ccCCCCEEEEECCEEEe---ecccCcchhhhhcccccccccccccccCccccccccccccccce
Confidence 99999999998744211 2334555555444 444466677777777777777766
No 13
>COG4959 TraF Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.67 E-value=3.3e-16 Score=110.01 Aligned_cols=109 Identities=26% Similarity=0.324 Sum_probs=79.4
Q ss_pred EeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCC------------CCceEEEEEEEeCCCEEEEeCC
Q 031448 34 SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVD------------PNKIVTKRIVGVEGDRVTYFKP 101 (159)
Q Consensus 34 ~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~------------~~~~~vkRVi~~pGd~v~i~~~ 101 (159)
..++++.+...| -| +..+.|.. ..+.+||+|+++.|.. ...+++|||.|+|||+|++.++
T Consensus 30 p~l~~N~S~S~p----lG-lyrv~k~~---~Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~ 101 (173)
T COG4959 30 PGLRVNASASAP----LG-LYRVSKLS---APVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQ 101 (173)
T ss_pred cceEeccCCCcc----ee-EEEecccC---CCcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecc
Confidence 345555444444 23 33445533 4569999999998852 3467999999999999999863
Q ss_pred C--------------------CCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeC
Q 031448 102 R--------------------NGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWP 151 (159)
Q Consensus 102 ~--------------------~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p 151 (159)
. ......+-.+-++|+|+++|..+.|+||||||||+.++|+|.+.- +|-
T Consensus 102 ~I~I~G~~v~~sl~~D~~GR~lp~~~gcR~l~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRP-vwt 170 (173)
T COG4959 102 GIAIDGKPVAASLPVDRVGRALPRWQGCRYLAPSELLLLTDRSSTSFDSRYFGPIPASQVIGVARP-VWT 170 (173)
T ss_pred eEEECCEEeeeeccccccCCcCCcccCCceecCCeEEEEeccCCcccccceecccCHHHcceeeee-eec
Confidence 2 111223444889999999999999999999999999999999875 443
No 14
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=99.33 E-value=1.2e-11 Score=77.18 Aligned_cols=57 Identities=35% Similarity=0.494 Sum_probs=45.3
Q ss_pred EEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEe
Q 031448 37 LVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYF 99 (159)
Q Consensus 37 ~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~ 99 (159)
+|.|+||+|++. +||++++++. .+++.||+|++..+.+. ..++||+.+.+|+.+.+.
T Consensus 1 ~V~GdSM~P~i~-~Gd~v~v~~~----~~~~~gdivv~~~~~~~-~~~iKrv~~~~~~~~~~~ 57 (70)
T PF00717_consen 1 RVEGDSMEPTIK-DGDIVLVDPS----SEPKDGDIVVVKIDGDE-ELYIKRVVGEPGGIILIS 57 (70)
T ss_dssp EEESSTTGGTSS-TTEEEEEEET----S---TTSEEEEEETTEE-SEEEEEEEEETTEEEEE-
T ss_pred CeECcCcccCee-CCCEEEEEEc----CCCccCeEEEEEECCce-eeEEEEEEEeCCCEEEEe
Confidence 588999999998 9999999984 48999999999985421 389999999999877664
No 15
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=99.30 E-value=3.9e-11 Score=76.99 Aligned_cols=83 Identities=41% Similarity=0.584 Sum_probs=63.8
Q ss_pred eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecC
Q 031448 35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPK 114 (159)
Q Consensus 35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~ 114 (159)
.+.+.|+||+|++. .||++++++.. ..++.||++++..+. +..++||+...++ +
T Consensus 2 ~~~v~g~SM~P~i~-~gd~v~i~~~~---~~~~~G~iv~~~~~~--~~~~ikrl~~~~~--------------------~ 55 (84)
T cd06462 2 ALRVEGDSMEPTIP-DGDLVLVDKSS---YEPKRGDIVVFRLPG--GELTVKRVIGLPG--------------------E 55 (84)
T ss_pred eeEEcCCCccCccc-CCCEEEEEecC---CCCcCCEEEEEEcCC--CcEEEEEEEEECC--------------------C
Confidence 46899999999998 99999999843 248999999999843 5899999998764 2
Q ss_pred CeEEEEcCCCCCCCCCCccccccCCCeEEEE
Q 031448 115 GHVWIQGDNLYASRDSRQFGPVPYGLIEGKA 145 (159)
Q Consensus 115 ~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v 145 (159)
+++++.+||+ ++.+.+..+. ....++|++
T Consensus 56 ~~~~l~~~N~-~~~~~~~~~~-~~~~i~g~v 84 (84)
T cd06462 56 GHYFLLGDNP-NSPDSRIDGP-PELDIVGVV 84 (84)
T ss_pred CEEEEECCCC-CCCcccccCC-CHHHEEEeC
Confidence 4899999994 5555544332 556677653
No 16
>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.29 E-value=3.2e-11 Score=84.79 Aligned_cols=118 Identities=20% Similarity=0.218 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhce-------EEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCC
Q 031448 8 AKEALTQTLTFARFFCLFHVTNHYL-------WSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDP 80 (159)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~ 80 (159)
.|+.+.-++-+++++..++.+..-. ...+.|-++||+|.++ .||.++..... ....+.||+|+|+.+ +.
T Consensus 16 ~Rq~l~Q~ln~~mivssA~MiwK~l~vvt~seSPiVVVLSgSMePaF~-RGDlLfL~N~~--~~p~~vGdivVf~ve-gR 91 (180)
T KOG3342|consen 16 IRQLLYQVLNFAMIVSSAYMIWKGLMVVTGSESPIVVVLSGSMEPAFH-RGDLLFLTNRN--EDPIRVGDIVVFKVE-GR 91 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhheeeeCCCCCEEEEEcCCcCcccc-cccEEEEecCC--CCcceeccEEEEEEC-Cc
Confidence 3444444444444444444333322 3678999999999999 99999986533 256899999999985 35
Q ss_pred CceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCc-c----ccccCCCeEEEEEE
Q 031448 81 NKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQ-F----GPVPYGLIEGKAFF 147 (159)
Q Consensus 81 ~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~-~----G~V~~~~I~G~v~~ 147 (159)
.-+.+|||+.+-+- .-.+-++.+.|||+ ..|.|. | -..++++|+|+|.-
T Consensus 92 ~IPiVHRviK~he~----------------~~~~~~~LTKGDNN--~~dD~~Ly~~gq~~L~r~~Ivg~~~G 145 (180)
T KOG3342|consen 92 EIPIVHRVIKQHEK----------------SNGHIKFLTKGDNN--AVDDRGLYAQGQNWLERKDIVGRVRG 145 (180)
T ss_pred cCchhHHHHHHhcc----------------cCCcEEEEecCCCC--cccchhcccccccceeccceeeEEee
Confidence 67899999986431 00112578889994 445553 2 24888999999864
No 17
>COG2932 Predicted transcriptional regulator [Transcription]
Probab=99.01 E-value=5.3e-09 Score=79.01 Aligned_cols=89 Identities=25% Similarity=0.243 Sum_probs=63.6
Q ss_pred EeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEec
Q 031448 34 SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVP 113 (159)
Q Consensus 34 ~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp 113 (159)
....|.|+||+|+++ +||.++|++- .+..+||.+++.. .+++.++||+...+|
T Consensus 124 ~~i~V~GDSMeP~~~-~Gd~ilVd~~----~~~~~gd~v~v~~--~g~~~~VK~l~~~~~-------------------- 176 (214)
T COG2932 124 FALRVTGDSMEPTYE-DGDTLLVDPG----VNTRRGDRVYVET--DGGELYVKKLQREPG-------------------- 176 (214)
T ss_pred EEEEEeCCccccccc-CCCEEEECCC----CceeeCCEEEEEE--eCCeEEEEEEEEecC--------------------
Confidence 457999999999999 9999999873 4778888666655 246899999998776
Q ss_pred CCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeC
Q 031448 114 KGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWP 151 (159)
Q Consensus 114 ~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p 151 (159)
+.+.+.++|+....|-- +-.-..=.|+|+|++..-+
T Consensus 177 -~~~~l~S~N~~~~~~~~-~~~~~~v~iIgrVv~~~~~ 212 (214)
T COG2932 177 -GLLRLVSLNPDYYPDEI-FSEDDDVEIIGRVVWVSRL 212 (214)
T ss_pred -CeEEEEeCCCCCCcccc-cCccceEEEEEEEEEEeee
Confidence 45668888874433322 1111113589999986644
No 18
>cd06529 S24_LexA-like Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the
Probab=98.96 E-value=1.2e-08 Score=65.04 Aligned_cols=52 Identities=33% Similarity=0.454 Sum_probs=44.4
Q ss_pred eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448 35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD 94 (159)
Q Consensus 35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd 94 (159)
...+.|+||+|+++ +||++++++. ..++.||++++..+ +..++||+...+++
T Consensus 2 ~~~v~g~sM~p~i~-~gd~lii~~~----~~~~~g~i~~~~~~---~~~~ikr~~~~~~~ 53 (81)
T cd06529 2 ALRVKGDSMEPTIP-DGDLVLVDPS----DTPRDGDIVVARLD---GELTVKRLQRRGGG 53 (81)
T ss_pred EEEEECCCcCCccC-CCCEEEEcCC----CCCCCCCEEEEEEC---CEEEEEEEEECCCC
Confidence 36899999999998 9999999874 35999999999974 37899999987753
No 19
>PRK10276 DNA polymerase V subunit UmuD; Provisional
Probab=98.60 E-value=1.5e-06 Score=61.37 Aligned_cols=85 Identities=16% Similarity=0.070 Sum_probs=59.0
Q ss_pred EEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448 33 WSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV 111 (159)
Q Consensus 33 ~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~ 111 (159)
....+|.|+||. |++. +||++++++- .+++.||+|++.. .++..+||+...
T Consensus 51 ~f~l~V~GdSM~~~~I~-~GD~liVd~~----~~~~~Gdivv~~~---~g~~~vKrl~~~-------------------- 102 (139)
T PRK10276 51 TYFVKASGDSMIDAGIS-DGDLLIVDSA----ITASHGDIVIAAV---DGEFTVKKLQLR-------------------- 102 (139)
T ss_pred EEEEEEecCCCCCCCCC-CCCEEEEECC----CCCCCCCEEEEEE---CCEEEEEEEEEC--------------------
Confidence 345899999998 6898 9999999863 3678999999976 346789998742
Q ss_pred ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448 112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW 150 (159)
Q Consensus 112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~ 150 (159)
+++++..+|+.. .....-.-+.=.|+|+|.+.+-
T Consensus 103 ---~~~~L~s~N~~y--~~i~i~~~~~~~IiG~V~~~~~ 136 (139)
T PRK10276 103 ---PTVQLIPMNSAY--SPITISSEDTLDVFGVVTHIVK 136 (139)
T ss_pred ---CcEEEEcCCCCC--CCEEcCCCCcEEEEEEEEEEEE
Confidence 146777887632 1111111112379999988664
No 20
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=98.51 E-value=3.2e-06 Score=63.01 Aligned_cols=88 Identities=18% Similarity=0.109 Sum_probs=64.0
Q ss_pred eEEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceE
Q 031448 32 LWSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTV 110 (159)
Q Consensus 32 ~~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~ 110 (159)
-...+.+.|+||. |.+. +||++++++. ..++.||+|++.. .++..+||+.-..
T Consensus 110 ~~f~~~V~GdSM~~~~i~-~Gd~v~v~~~----~~~~~G~ivvv~~---~~~~~vKrl~~~~------------------ 163 (199)
T TIGR00498 110 AVFLLKVMGDSMVDAGIC-DGDLLIVRSQ----KDARNGEIVAAMI---DGEVTVKRFYKDG------------------ 163 (199)
T ss_pred CEEEEEecCCCCCCCCCC-CCCEEEEecC----CCCCCCCEEEEEE---CCEEEEEEEEEEC------------------
Confidence 3457899999996 5797 9999999863 4789999999997 4578999987542
Q ss_pred EecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 031448 111 VVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPP 152 (159)
Q Consensus 111 ~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~ 152 (159)
+.+++..+|+... + .... -..-.|+|+|+..+..+
T Consensus 164 ----~~i~L~s~N~~y~-~-i~~~-~~~~~IiG~Vv~~~r~~ 198 (199)
T TIGR00498 164 ----TKVELKPENPEFD-P-IVLN-AEDVTILGKVVGVIRNF 198 (199)
T ss_pred ----CEEEEEcCCCCCc-C-CcCC-CCcEEEEEEEEEEEEec
Confidence 3677888887432 1 1110 11358999999877654
No 21
>PRK12423 LexA repressor; Provisional
Probab=98.48 E-value=3.1e-06 Score=63.42 Aligned_cols=84 Identities=20% Similarity=0.142 Sum_probs=60.7
Q ss_pred EeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEe
Q 031448 34 SPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVV 112 (159)
Q Consensus 34 ~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~v 112 (159)
....|.|+||. |++. +||++++++- .+++.||+|++.. .++..+||+.-..
T Consensus 115 f~l~V~GdSM~~~~i~-~Gd~viv~~~----~~~~~Gdivv~~~---~~~~~vKrl~~~~-------------------- 166 (202)
T PRK12423 115 YLLQVQGDSMIDDGIL-DGDLVGVHRS----PEARDGQIVVARL---DGEVTIKRLERSG-------------------- 166 (202)
T ss_pred EEEEEecCcCCCCCcC-CCCEEEEeCC----CcCCCCCEEEEEE---CCEEEEEEEEEeC--------------------
Confidence 35799999997 7998 9999999862 4788999999986 3478899987543
Q ss_pred cCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEE
Q 031448 113 PKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRV 149 (159)
Q Consensus 113 p~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~ 149 (159)
+.+++..+|+.. +...+-+-..-.|+|++...+
T Consensus 167 --~~~~L~s~N~~y--~~i~~~~~~~~~I~Gvv~g~~ 199 (202)
T PRK12423 167 --DRIRLLPRNPAY--APIVVAPDQDFAIEGVFCGLI 199 (202)
T ss_pred --CEEEEEcCCCCC--CCEEcCCCCcEEEEEEEEEEE
Confidence 367788888632 222221222348999998654
No 22
>PRK00215 LexA repressor; Validated
Probab=98.48 E-value=3.8e-06 Score=62.91 Aligned_cols=85 Identities=22% Similarity=0.223 Sum_probs=61.5
Q ss_pred EEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448 33 WSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV 111 (159)
Q Consensus 33 ~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~ 111 (159)
.....|.|+||. |++. +||++++++- ..++.||+|++... ++..+||+.-..
T Consensus 118 ~~~~~V~GdSM~~~~i~-~Gd~v~v~~~----~~~~~G~ivv~~~~---~~~~vKrl~~~~------------------- 170 (205)
T PRK00215 118 DFLLRVRGDSMIDAGIL-DGDLVIVRKQ----QTARNGQIVVALID---DEATVKRFRREG------------------- 170 (205)
T ss_pred eEEEEEccCCCCCCCcC-CCCEEEEeCC----CCCCCCCEEEEEEC---CEEEEEEEEEeC-------------------
Confidence 456889999995 7898 9999999862 36789999999873 378999997642
Q ss_pred ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448 112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW 150 (159)
Q Consensus 112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~ 150 (159)
+.+++..+|+.. +.....+ ..-.|+|+|...+-
T Consensus 171 ---~~~~L~s~Np~y--~~~~~~~-~~~~IiG~Vv~~~r 203 (205)
T PRK00215 171 ---GHIRLEPENPAY--EPIIVDP-DRVTIEGKVVGLIR 203 (205)
T ss_pred ---CEEEEEcCCCCC--CCEEeCC-CcEEEEEEEEEEEE
Confidence 367788888642 2221111 13589999987654
No 23
>COG1974 LexA SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]
Probab=97.89 E-value=0.00039 Score=52.09 Aligned_cols=88 Identities=18% Similarity=0.116 Sum_probs=64.5
Q ss_pred EEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448 33 WSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV 111 (159)
Q Consensus 33 ~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~ 111 (159)
....+|.|+||. +.+. +||+++|++- .....||+|+...++ ++.-+||..--.
T Consensus 112 ~f~L~V~GdSM~~~gi~-dGDlvvV~~~----~~a~~GdiVvA~i~g--~e~TvKrl~~~g------------------- 165 (201)
T COG1974 112 TFFLRVSGDSMIDAGIL-DGDLVVVDPT----EDAENGDIVVALIDG--EEATVKRLYRDG------------------- 165 (201)
T ss_pred eEEEEecCCccccCcCC-CCCEEEEcCC----CCCCCCCEEEEEcCC--CcEEEEEEEEeC-------------------
Confidence 346799999995 6776 8999999873 589999999998743 668899987633
Q ss_pred ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 031448 112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPP 152 (159)
Q Consensus 112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~ 152 (159)
+.+++.--|+..+ +..+..= .-.|+|++...+|+.
T Consensus 166 ---~~i~L~p~Np~~~--~i~~~~~-~~~I~G~vvgv~r~~ 200 (201)
T COG1974 166 ---NQILLKPENPAYP--PIPVDAD-SVTILGKVVGVIRDI 200 (201)
T ss_pred ---CEEEEEeCCCCCC--CcccCcc-ceEEEEEEEEEEecC
Confidence 3677888876332 2221111 457999999988874
No 24
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=86.46 E-value=0.99 Score=31.98 Aligned_cols=13 Identities=31% Similarity=0.174 Sum_probs=11.1
Q ss_pred CCCCCCeEEEEec
Q 031448 64 GRLGPGDIVFVRS 76 (159)
Q Consensus 64 ~~~~~GDiVvf~~ 76 (159)
....+||+|+|+.
T Consensus 83 ~~~~~GD~i~~~~ 95 (166)
T COG0681 83 VIGLRGDIVVFKD 95 (166)
T ss_pred eccCCCCEEEEEC
Confidence 3678999999997
No 25
>PF05257 CHAP: CHAP domain; InterPro: IPR007921 The CHAP (cysteine, histidine-dependent amidohydrolases/peptidases) domain is a region between 110 and 140 amino acids that is found in proteins from bacteria, bacteriophages, archaea and eukaryotes of the Trypanosomidae family. Many of these proteins are uncharacterised, but it has been proposed that they may function mainly in peptidoglycan hydrolysis. The CHAP domain is found in a wide range of protein architectures; it is commonly associated with bacterial type SH3 domains and with several families of amidase domains. It has been suggested that CHAP domain containing proteins utilise a catalytic cysteine residue in a nucleophilic-attack mechanism [, ]. The CHAP domain contains two invariant residues, a cysteine and a histidine. These residues form part of the putative active site of CHAP domain containing proteins. Secondary structure predictions show that the CHAP domain belongs to the alpha + beta structural class, with the N-terminal half largely containing predicted alpha helices and the C-terminal half principally composed of predicted beta strands [, ]. Some proteins known to contain a CHAP domain are listed below: Bacterial and trypanosomal glutathionylspermidine amidases. A variety of bacterial autolysins. A Nocardia aerocolonigenes putative esterase. Streptococcus pneumoniae choline-binding protein D. Methanosarcina mazei protein MM2478, a putative chloride channel. Several phage-encoded peptidoglycan hydrolases. Cysteine peptidases belonging to MEROPS peptidase family C51 (D-alanyl-glycyl endopeptidase, clan CA). ; PDB: 2LRJ_A 2VPM_B 2VOB_B 2VPS_A 2K3A_A 2IO9_A 2IO8_A 2IOB_A 2IOA_B 2IO7_B ....
Probab=84.34 E-value=3.6 Score=27.90 Aligned_cols=38 Identities=24% Similarity=0.249 Sum_probs=24.9
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEEEe-CCCEEEEeCC
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIVGV-EGDRVTYFKP 101 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi~~-pGd~v~i~~~ 101 (159)
..|+.|||++|........-.+--|.++ .+++|++.+.
T Consensus 61 ~~P~~Gdivv~~~~~~~~~GHVaIV~~v~~~~~i~v~e~ 99 (124)
T PF05257_consen 61 STPQPGDIVVWDSGSGGGYGHVAIVESVNDGGTITVIEQ 99 (124)
T ss_dssp S---TTEEEEEEECTTTTT-EEEEEEEE-TTSEEEEEEC
T ss_pred cccccceEEEeccCCCCCCCeEEEEEEECCCCEEEEEEC
Confidence 6899999999953333334478888888 8888887643
No 26
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=77.33 E-value=14 Score=25.67 Aligned_cols=56 Identities=13% Similarity=0.170 Sum_probs=40.9
Q ss_pred CCCeEEEEecC--CCCCceEEEEEEEeCCCE--EEEeCCCCCCCcceEEecCCeEEEEcC
Q 031448 67 GPGDIVFVRSP--VDPNKIVTKRIVGVEGDR--VTYFKPRNGDSCHTVVVPKGHVWIQGD 122 (159)
Q Consensus 67 ~~GDiVvf~~p--~~~~~~~vkRVi~~pGd~--v~i~~~~~~~~~~~~~vp~~~~~v~gd 122 (159)
+.||-|+++.+ ++.+..++-+|+..-++. .++.|.........++++..++.-+=.
T Consensus 1 q~G~~VAak~~~~~~~~~WIla~Vv~~~~~~~rYeV~D~d~~~~~~~~~~~~~~iIPLP~ 60 (130)
T PF07039_consen 1 QPGDQVAAKVKQGNEEEEWILAEVVKYNSDGNRYEVEDPDPEEEKKRYKLSRKQIIPLPK 60 (130)
T ss_dssp -TT-EEEEEECTTTTTCEEEEEEEEEEETTTTEEEEEETTTCTTTEEEEEEGGGEEEE-S
T ss_pred CCCCEEEEEcCCCCCCCCEEEEEEEEEeCCCCEEEEecCCCCCCCceEEeCHHHEEECCC
Confidence 57999999875 445688999999988774 888776554344588888888888866
No 27
>TIGR02594 conserved hypothetical protein TIGR02594. Members of this protein family known so far are restricted to the bacteria, and for the most to the proteobacteria. The function is unknown.
Probab=75.00 E-value=24 Score=24.45 Aligned_cols=55 Identities=16% Similarity=0.087 Sum_probs=31.3
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEE
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEG 143 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G 143 (159)
.+++.||+|+|+.. +.-.+--+++... ..+.+.++|-|..+.- ..-..++++|+|
T Consensus 72 ~~p~~GDiv~f~~~---~~~HVGi~~g~~~-------------------~~g~i~~lgGNq~~~V---~~~~~~~~~~~~ 126 (129)
T TIGR02594 72 SKPAYGCIAVKRRG---GGGHVGFVVGKDK-------------------QTGTIIVLGGNQGDRV---REALYSRSRIVA 126 (129)
T ss_pred CCCCccEEEEEECC---CCCEEEEEEeEcC-------------------CCCEEEEeeCCCCCeE---EEEEEecccEEE
Confidence 47899999999852 2224444444322 1247788888764332 222345555555
No 28
>PF00238 Ribosomal_L14: Ribosomal protein L14p/L23e; InterPro: IPR000218 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L14 is one of the proteins from the large ribosomal subunit. In eubacteria, L14 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins, which have been grouped on the basis of sequence similarities []. Based on amino-acid sequence homology, it is predicted that ribosomal protein L14 is a member of a recently identified family of structurally related RNA-binding proteins []. L14 is a protein of 119 to 137 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZR_M 4A1C_J 4A1E_J 4A1A_J 4A17_J 1VSP_I 3D5D_O 1VSA_I 3MRZ_K 3F1F_O ....
Probab=67.91 E-value=34 Score=23.53 Aligned_cols=84 Identities=20% Similarity=0.265 Sum_probs=45.9
Q ss_pred eEEEeCCCCccccCCCCcEEEEEe-cccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEec
Q 031448 35 PTLVFGPSMLPTLNLTGDVILAEY-VSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVP 113 (159)
Q Consensus 35 ~~~v~~~SM~Ptl~~~Gd~vlv~~-~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp 113 (159)
-..+.+.+-.+.-. -||.+++.- -.....++++||++---.=.. . +..--..|..+.+ .
T Consensus 21 cI~v~~~~~~~~a~-vGD~I~vsVkk~~~~~~vkkg~v~~avIVrt--k---~~~~r~dg~~i~F--------------~ 80 (122)
T PF00238_consen 21 CIKVLGGKRRKYAS-VGDIIVVSVKKGRPKSKVKKGQVYKAVIVRT--K---KPIRRKDGSFIKF--------------D 80 (122)
T ss_dssp EEEETSSTTTSEE--TTSEEEEEEEEE-SSSSSTTTEEEEEEEEEC--S---SEEETTTSEEEEE--------------S
T ss_pred EEEEeCCcCccccc-cceEEEEEEeecccCccccccceEEEEEEEE--e---EEEEEeCCcEEEe--------------C
Confidence 34455555555565 688877632 111235677777653321000 0 0111233433433 5
Q ss_pred CCeEEEEcCCCCCCCCCCccccccCC
Q 031448 114 KGHVWIQGDNLYASRDSRQFGPVPYG 139 (159)
Q Consensus 114 ~~~~~v~gdn~~~s~DSR~~G~V~~~ 139 (159)
++.+-++.++. +...+|-+|||+++
T Consensus 81 ~Na~VLln~~~-~p~GtrI~Gpv~~e 105 (122)
T PF00238_consen 81 DNAVVLLNKKG-NPLGTRIFGPVPRE 105 (122)
T ss_dssp SEEEEEEETTS-SBSSSSBCSEEEHH
T ss_pred CccEEEEcCCC-CEeeeEEEeeehHH
Confidence 66788888875 78899999999864
No 29
>PF10000 ACT_3: ACT domain; InterPro: IPR018717 This domain has no known function.; PDB: 1ZVP_C.
Probab=64.96 E-value=4.2 Score=25.31 Aligned_cols=17 Identities=35% Similarity=0.641 Sum_probs=12.2
Q ss_pred CCCccccCCCCcEEEEEe
Q 031448 41 PSMLPTLNLTGDVILAEY 58 (159)
Q Consensus 41 ~SM~Ptl~~~Gd~vlv~~ 58 (159)
.||+|.++ +|++||..-
T Consensus 12 ~~m~P~L~-~~~yVF~t~ 28 (72)
T PF10000_consen 12 ASMSPELN-PGEYVFCTV 28 (72)
T ss_dssp ST-EEEE--SS-EEEEEE
T ss_pred hhCCcEeC-CCCEEEEEe
Confidence 58999999 899999865
No 30
>PF10030 DUF2272: Uncharacterized protein conserved in bacteria (DUF2272); InterPro: IPR019262 This is a domain of unknown function found in proteins of unknown function.
Probab=61.00 E-value=40 Score=24.92 Aligned_cols=38 Identities=21% Similarity=0.218 Sum_probs=23.2
Q ss_pred CCCCCCeEEEEecCCC------------CCceEEEEEEE---eCCCEEEEeCC
Q 031448 64 GRLGPGDIVFVRSPVD------------PNKIVTKRIVG---VEGDRVTYFKP 101 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~------------~~~~~vkRVi~---~pGd~v~i~~~ 101 (159)
..|+.||+|.+..... .-...+--|++ ..+++++...+
T Consensus 92 y~P~~GDlIc~~R~~~~~~~~~~~~~~~~~~~HcdIVVa~~~~d~~~v~~IGG 144 (183)
T PF10030_consen 92 YKPRPGDLICYDRGRSKTYDFASLPTSGGFPSHCDIVVAVNVVDGRTVTTIGG 144 (183)
T ss_pred CCCCCCCEEEecCCCCcccchhhhccCCCCCCceeEEEeeccCCCCEEEEEcC
Confidence 4678888888876431 12235556677 56666666543
No 31
>COG3602 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.80 E-value=5.5 Score=27.22 Aligned_cols=17 Identities=35% Similarity=0.561 Sum_probs=14.5
Q ss_pred CCCccccCCCCcEEEEEe
Q 031448 41 PSMLPTLNLTGDVILAEY 58 (159)
Q Consensus 41 ~SM~Ptl~~~Gd~vlv~~ 58 (159)
.||+|.+. +||+|+-.-
T Consensus 12 ~smtPeL~-~G~yVfcT~ 28 (134)
T COG3602 12 ASMTPELL-DGDYVFCTV 28 (134)
T ss_pred HhcCcccc-CCceEEEEe
Confidence 48999999 999999753
No 32
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=58.05 E-value=58 Score=22.34 Aligned_cols=25 Identities=28% Similarity=0.393 Sum_probs=16.6
Q ss_pred CCeEEEEcCCCCCCCCCCccccccCC
Q 031448 114 KGHVWIQGDNLYASRDSRQFGPVPYG 139 (159)
Q Consensus 114 ~~~~~v~gdn~~~s~DSR~~G~V~~~ 139 (159)
+|.+-++.++ .+-.-+|-||||.++
T Consensus 81 dNA~Viin~~-g~P~GtrI~GPVaRE 105 (122)
T COG0093 81 DNAAVIINPD-GEPRGTRIFGPVARE 105 (122)
T ss_pred CceEEEECCC-CCcccceEecchhHH
Confidence 3444444444 366788999999886
No 33
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=57.61 E-value=17 Score=27.64 Aligned_cols=25 Identities=4% Similarity=0.025 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 031448 4 WGLLAKEALTQTLTFARFFCLFHVT 28 (159)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~ 28 (159)
.++....+|.+++.++++|+++++.
T Consensus 8 KrRK~N~iLNiaI~IV~lLIiiva~ 32 (217)
T PF07423_consen 8 KRRKTNKILNIAIGIVSLLIIIVAY 32 (217)
T ss_pred HhhhhhhhHHHHHHHHHHHHHHHhh
Confidence 3444556676666665555544443
No 34
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=57.37 E-value=14 Score=23.28 Aligned_cols=20 Identities=45% Similarity=0.642 Sum_probs=9.3
Q ss_pred CCcEEEEEecccCCCCCCCCeEE
Q 031448 50 TGDVILAEYVSHRVGRLGPGDIV 72 (159)
Q Consensus 50 ~Gd~vlv~~~~~~~~~~~~GDiV 72 (159)
.||.|++....+ +..+|||+
T Consensus 49 ~GD~V~Ve~~~~---d~~kg~I~ 68 (75)
T COG0361 49 PGDVVLVELSPY---DLTKGRIV 68 (75)
T ss_pred CCCEEEEEeccc---ccccccEE
Confidence 355555554332 34455543
No 35
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=56.39 E-value=64 Score=22.32 Aligned_cols=14 Identities=21% Similarity=0.392 Sum_probs=11.0
Q ss_pred CCCCCCeEEEEecC
Q 031448 64 GRLGPGDIVFVRSP 77 (159)
Q Consensus 64 ~~~~~GDiVvf~~p 77 (159)
..++.||+|+|-..
T Consensus 41 ~~f~~GDlvLflpt 54 (129)
T PF10377_consen 41 RNFQVGDLVLFLPT 54 (129)
T ss_pred ecCCCCCEEEEEec
Confidence 57888999988753
No 36
>smart00439 BAH Bromo adjacent homology domain.
Probab=54.58 E-value=59 Score=21.30 Aligned_cols=16 Identities=31% Similarity=0.198 Sum_probs=12.3
Q ss_pred cccCCCeEEEEEEEEe
Q 031448 135 PVPYGLIEGKAFFRVW 150 (159)
Q Consensus 135 ~V~~~~I~G~v~~~~~ 150 (159)
-++.+.|+||+.....
T Consensus 70 ~i~~~~I~~kc~V~~~ 85 (120)
T smart00439 70 TVPLSDIIGKCNVLSK 85 (120)
T ss_pred cCChHHeeeEEEEEEc
Confidence 4888999999875443
No 37
>PF06890 Phage_Mu_Gp45: Bacteriophage Mu Gp45 protein; InterPro: IPR014462 This entry is represented by the Bacteriophage Mu, Gp45. The characteristics of the protein distribution suggest prophage matches.
Probab=54.41 E-value=81 Score=22.85 Aligned_cols=38 Identities=32% Similarity=0.400 Sum_probs=28.6
Q ss_pred cCCCCCCCCeEEEEecCCCCCceEEEE---EEEeCCCEEEEeC
Q 031448 61 HRVGRLGPGDIVFVRSPVDPNKIVTKR---IVGVEGDRVTYFK 100 (159)
Q Consensus 61 ~~~~~~~~GDiVvf~~p~~~~~~~vkR---Vi~~pGd~v~i~~ 100 (159)
++.+.++.|++.+|.. +.....+|| ++.+.++++++..
T Consensus 70 yR~~~L~~GEvalY~~--~G~~I~L~~~G~ii~~~~~~~~v~a 110 (162)
T PF06890_consen 70 YRPKGLKPGEVALYDD--EGQKIHLKRDGRIIEVTCKTVTVNA 110 (162)
T ss_pred ccccCCCCCcEEEEcC--CCCEEEEEecceEEeccCceEEEec
Confidence 3456789999999985 345666765 7778889888874
No 38
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=52.67 E-value=18 Score=22.23 Aligned_cols=11 Identities=45% Similarity=0.516 Sum_probs=5.4
Q ss_pred CCCCeEEEEec
Q 031448 66 LGPGDIVFVRS 76 (159)
Q Consensus 66 ~~~GDiVvf~~ 76 (159)
+..||.|....
T Consensus 45 I~~GD~V~Ve~ 55 (68)
T TIGR00008 45 ILPGDKVKVEL 55 (68)
T ss_pred ECCCCEEEEEE
Confidence 44455555543
No 39
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=52.14 E-value=22 Score=24.23 Aligned_cols=28 Identities=29% Similarity=0.349 Sum_probs=20.9
Q ss_pred CCCCCeEEEEecCCCCCceEEEEEEEeC
Q 031448 65 RLGPGDIVFVRSPVDPNKIVTKRIVGVE 92 (159)
Q Consensus 65 ~~~~GDiVvf~~p~~~~~~~vkRVi~~p 92 (159)
-++.||-|.+..++.++..+|.||..+-
T Consensus 3 ~~~vGD~V~v~~~~~~~~pyIgrI~~i~ 30 (121)
T cd04714 3 IIRVGDCVLFKSPGRPSLPYVARIESLW 30 (121)
T ss_pred EEEcCCEEEEeCCCCCCCCEEEEEEEEE
Confidence 3577899999876655677888887653
No 40
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=51.02 E-value=18 Score=22.76 Aligned_cols=11 Identities=27% Similarity=0.588 Sum_probs=7.7
Q ss_pred CCCCeEEEEec
Q 031448 66 LGPGDIVFVRS 76 (159)
Q Consensus 66 ~~~GDiVvf~~ 76 (159)
+++||+|....
T Consensus 39 I~~GD~VlV~~ 49 (78)
T cd04456 39 IKRGDFLIVDP 49 (78)
T ss_pred EcCCCEEEEEe
Confidence 67777777764
No 41
>CHL00057 rpl14 ribosomal protein L14
Probab=50.77 E-value=80 Score=21.74 Aligned_cols=28 Identities=18% Similarity=0.350 Sum_probs=20.6
Q ss_pred ecCCeEEEEcCCCCCCCCCCccccccCCC
Q 031448 112 VPKGHVWIQGDNLYASRDSRQFGPVPYGL 140 (159)
Q Consensus 112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~ 140 (159)
..+|.+-++.++. +-.-+|-+|||+++-
T Consensus 79 F~~Na~VLin~~~-~p~GTrI~Gpv~~el 106 (122)
T CHL00057 79 FDDNAAVVIDQEG-NPKGTRVFGPIAREL 106 (122)
T ss_pred cCCceEEEECCCC-CEeEeEEEccchHHH
Confidence 4556677777664 667889999999765
No 42
>PRK13884 conjugal transfer peptidase TraF; Provisional
Probab=49.37 E-value=1e+02 Score=22.52 Aligned_cols=52 Identities=12% Similarity=-0.021 Sum_probs=28.7
Q ss_pred Chh-hHHHHHHHHHHHHHHHHHHHHHHHHhhceE--------EeEEEeCCCCccccCCCCcEEEEEe
Q 031448 1 MRR-WGLLAKEALTQTLTFARFFCLFHVTNHYLW--------SPTLVFGPSMLPTLNLTGDVILAEY 58 (159)
Q Consensus 1 m~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~v~~~SM~Ptl~~~Gd~vlv~~ 58 (159)
|+. .|++...+. .+.+.+++++.+++...+.+ ..|.+. ..| ++ .||+|.+..
T Consensus 1 m~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~N~T~S~P~glY~~~---~~~-~~-~Gd~V~f~~ 61 (178)
T PRK13884 1 MSRILKRITAGVA-VAGLAALLLAALGYAAGARVNTTKSIPVGLYWTS---SAP-VE-KGAYVLFCP 61 (178)
T ss_pred CcHHHHHHHHHHH-HHHHHHHHHHHHHHhCcEEEECCCCCcceEEEEe---CCC-CC-CCCEEEEeC
Confidence 543 344444444 44444444444445566665 456664 344 66 899999964
No 43
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=49.07 E-value=87 Score=21.65 Aligned_cols=15 Identities=13% Similarity=-0.161 Sum_probs=11.4
Q ss_pred CCCeEEEEEEEEeCC
Q 031448 138 YGLIEGKAFFRVWPP 152 (159)
Q Consensus 138 ~~~I~G~v~~~~~p~ 152 (159)
...|+||+..-+.+.
T Consensus 88 ~~~I~~k~~V~~~~~ 102 (130)
T cd04712 88 STEIKGVHKVDWSGT 102 (130)
T ss_pred cceeEEEEEEEEecC
Confidence 559999998776653
No 44
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=48.96 E-value=18 Score=21.80 Aligned_cols=28 Identities=25% Similarity=0.335 Sum_probs=13.5
Q ss_pred CCcEEEEEecc--cCCCCCCCCeEEEEecC
Q 031448 50 TGDVILAEYVS--HRVGRLGPGDIVFVRSP 77 (159)
Q Consensus 50 ~Gd~vlv~~~~--~~~~~~~~GDiVvf~~p 77 (159)
+|..++..--. ...--+++||+|.....
T Consensus 24 dg~~~l~~i~gK~r~~iwI~~GD~V~V~~~ 53 (65)
T PF01176_consen 24 DGEERLARIPGKFRKRIWIKRGDFVLVEPS 53 (65)
T ss_dssp TSEEEEEEE-HHHHTCC---TTEEEEEEES
T ss_pred CCCEEEEEeccceeeeEecCCCCEEEEEec
Confidence 56655553211 11235788888888753
No 45
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=47.97 E-value=23 Score=23.34 Aligned_cols=26 Identities=27% Similarity=0.424 Sum_probs=19.4
Q ss_pred CCCCeEEEEecCCCCCceEEEEEEEe
Q 031448 66 LGPGDIVFVRSPVDPNKIVTKRIVGV 91 (159)
Q Consensus 66 ~~~GDiVvf~~p~~~~~~~vkRVi~~ 91 (159)
++.||.|.+..+......++.||..+
T Consensus 3 ~~vGD~V~v~~~~~~~~~~v~~I~~i 28 (119)
T PF01426_consen 3 YKVGDFVYVKPDDPPEPPYVARIEEI 28 (119)
T ss_dssp EETTSEEEEECTSTTSEEEEEEEEEE
T ss_pred EeCCCEEEEeCCCCCCCCEEEEEEEE
Confidence 46688888877655677888888776
No 46
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=45.36 E-value=22 Score=22.32 Aligned_cols=12 Identities=42% Similarity=0.695 Sum_probs=8.0
Q ss_pred CCCCCeEEEEec
Q 031448 65 RLGPGDIVFVRS 76 (159)
Q Consensus 65 ~~~~GDiVvf~~ 76 (159)
-+++||+|....
T Consensus 38 wI~~GD~V~Ve~ 49 (77)
T cd05793 38 WINEGDIVLVAP 49 (77)
T ss_pred EEcCCCEEEEEe
Confidence 367777777764
No 47
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=45.33 E-value=94 Score=20.98 Aligned_cols=47 Identities=15% Similarity=0.213 Sum_probs=28.1
Q ss_pred CcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCC-CEEEEe
Q 031448 51 GDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEG-DRVTYF 99 (159)
Q Consensus 51 Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pG-d~v~i~ 99 (159)
++...+...+.-...+..||+|.+...+ +...+.+++.-.| -|+++-
T Consensus 11 ~~~y~l~n~Pf~a~glA~gDvV~~~~~~--g~~~~~~~v~~sGnsTiRv~ 58 (117)
T PF14085_consen 11 DDTYRLDNIPFFAYGLALGDVVRAEPDD--GELWFQKVVESSGNSTIRVI 58 (117)
T ss_pred CCEEEEEecccccCCCCCCCEEEEEeCC--CeEEEEEEEecCCCEEEEEE
Confidence 4444444444445789999999999754 4555455444444 356553
No 48
>PF12459 DUF3687: D-Ala-teichoic acid biosynthesis protein; InterPro: IPR021008 Proteins in this family are bacterial proteins of approximately 50 amino acids in length. There are two completely conserved residues (L and Y) that may be functionally important. A number of entries are annotated as D-Ala-teichoic acid biosynthesis protein; however there is no direct evidence to support this annotation.
Probab=44.50 E-value=56 Score=18.13 Aligned_cols=28 Identities=18% Similarity=0.057 Sum_probs=16.7
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 031448 1 MRRWGLLAKEALTQTLTFARFFCLFHVT 28 (159)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~ 28 (159)
|...+...+.+.+.+.-.++.++++++.
T Consensus 1 ~~~~~~~~~fi~~T~fYf~Ill~L~ylY 28 (42)
T PF12459_consen 1 MIKQKPAVKFIGKTLFYFAILLALIYLY 28 (42)
T ss_pred CcccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666665555443
No 49
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=43.65 E-value=64 Score=22.33 Aligned_cols=27 Identities=19% Similarity=0.140 Sum_probs=18.0
Q ss_pred CCCCCeEEEEecCCCCCceEEEEEEEeCC
Q 031448 65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEG 93 (159)
Q Consensus 65 ~~~~GDiVvf~~p~~~~~~~vkRVi~~pG 93 (159)
.++.||.|....++ +..++.+|-.+-.
T Consensus 7 ~i~vGD~V~v~~~~--~~~~va~Ie~i~e 33 (130)
T cd04721 7 TISVHDFVYVLSEE--EDRYVAYIEDLYE 33 (130)
T ss_pred EEECCCEEEEeCCC--CCcEEEEEEEEEE
Confidence 47888988888643 4456666666543
No 50
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=43.45 E-value=25 Score=22.43 Aligned_cols=40 Identities=25% Similarity=0.304 Sum_probs=19.0
Q ss_pred EEEeCCCCcc-ccCCCCcEEEEEeccc--CCCCCCCCeEEEEec
Q 031448 36 TLVFGPSMLP-TLNLTGDVILAEYVSH--RVGRLGPGDIVFVRS 76 (159)
Q Consensus 36 ~~v~~~SM~P-tl~~~Gd~vlv~~~~~--~~~~~~~GDiVvf~~ 76 (159)
....|+.+.- .+. +|..++..--.. ..--+++||+|+...
T Consensus 12 ~~~lG~~~~~V~~~-dG~~~la~ipgK~Rk~iwI~~GD~VlVe~ 54 (83)
T smart00652 12 VKMLGNGRLEVMCA-DGKERLARIPGKMRKKVWIRRGDIVLVDP 54 (83)
T ss_pred EEEcCCCEEEEEEC-CCCEEEEEEchhhcccEEEcCCCEEEEEe
Confidence 3344444433 233 566555532111 111367788877764
No 51
>TIGR01067 rplN_bact ribosomal protein L14, bacterial/organelle. This model distinguishes bacterial and most organellar examples of ribosomal protein L14 from all archaeal and eukaryotic forms.
Probab=42.00 E-value=1.1e+02 Score=20.97 Aligned_cols=28 Identities=29% Similarity=0.432 Sum_probs=20.2
Q ss_pred ecCCeEEEEcCCCCCCCCCCccccccCCC
Q 031448 112 VPKGHVWIQGDNLYASRDSRQFGPVPYGL 140 (159)
Q Consensus 112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~ 140 (159)
..+|.+-++.++. +-.-+|-+|||+++-
T Consensus 79 F~~Na~VLin~~~-~p~GTrI~Gpv~~el 106 (122)
T TIGR01067 79 FDDNACVLINKNK-EPRGTRIFGPVAREL 106 (122)
T ss_pred CCCceEEEECCCC-CEeeeEEEccchHHH
Confidence 3556666666654 567889999999765
No 52
>PF10913 DUF2706: Protein of unknown function (DUF2706); InterPro: IPR024444 This family of proteins with unknown function appears to be restricted to Rickettsia spp.
Probab=40.20 E-value=43 Score=19.46 Aligned_cols=44 Identities=7% Similarity=0.049 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEe
Q 031448 14 QTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEY 58 (159)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~ 58 (159)
.+.+++++++++-++.-.--.+|.+.+.-.+|.+. ++.-+-+++
T Consensus 4 ~lkf~lv~imlaqllsctpsapyeikspcvs~did-d~s~ls~np 47 (60)
T PF10913_consen 4 SLKFLLVLIMLAQLLSCTPSAPYEIKSPCVSADID-DNSSLSVNP 47 (60)
T ss_pred HHHHHHHHHHHHHHHcCCCCCCccccCCccccccC-CCccccccc
Confidence 34455555666666655556788999998899888 777777665
No 53
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=39.81 E-value=41 Score=22.65 Aligned_cols=27 Identities=37% Similarity=0.586 Sum_probs=18.7
Q ss_pred CCCCCeEEEEecCCCCCceEEEEEEEe
Q 031448 65 RLGPGDIVFVRSPVDPNKIVTKRIVGV 91 (159)
Q Consensus 65 ~~~~GDiVvf~~p~~~~~~~vkRVi~~ 91 (159)
.++.||-|.+..+++++..++-||..+
T Consensus 3 ~~~vGD~V~v~~~~~~~~~~i~~I~~i 29 (121)
T cd04717 3 QYRVGDCVYVANPEDPSKPIIFRIERL 29 (121)
T ss_pred EEECCCEEEEeCCCCCCCCEEEEEeEE
Confidence 356788888877665466677777664
No 54
>cd03695 CysN_NodQ_II CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which sho
Probab=37.64 E-value=97 Score=19.23 Aligned_cols=33 Identities=30% Similarity=0.324 Sum_probs=23.0
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEE--------EeCCCEEEE
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIV--------GVEGDRVTY 98 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi--------~~pGd~v~i 98 (159)
..++.||-+.+.+ . +...-+|.+- |.+||.+.+
T Consensus 25 G~v~~Gd~v~~~P-~-~~~~~V~si~~~~~~~~~a~aGd~v~l 65 (81)
T cd03695 25 GSIRVGDEVVVLP-S-GKTSRVKSIETFDGELDEAGAGESVTL 65 (81)
T ss_pred ceEECCCEEEEcC-C-CCeEEEEEEEECCcEeCEEcCCCEEEE
Confidence 6788888888864 2 2345667766 777877766
No 55
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=37.63 E-value=35 Score=22.66 Aligned_cols=11 Identities=36% Similarity=0.706 Sum_probs=7.7
Q ss_pred CCCCeEEEEec
Q 031448 66 LGPGDIVFVRS 76 (159)
Q Consensus 66 ~~~GDiVvf~~ 76 (159)
+++||+|....
T Consensus 60 I~~GD~VlVe~ 70 (100)
T PRK04012 60 IREGDVVIVAP 70 (100)
T ss_pred ecCCCEEEEEe
Confidence 66777777764
No 56
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=37.21 E-value=30 Score=21.91 Aligned_cols=38 Identities=18% Similarity=0.300 Sum_probs=19.7
Q ss_pred EeCCCCccccCCCCcEEEEEecccCCCC---CCCCeEEEEec
Q 031448 38 VFGPSMLPTLNLTGDVILAEYVSHRVGR---LGPGDIVFVRS 76 (159)
Q Consensus 38 v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~---~~~GDiVvf~~ 76 (159)
..|++..-...++|.-.++.--. .++. +++||+|+...
T Consensus 9 ~~G~n~~~V~~~dG~~~l~~iP~-KfRk~iWIkrGd~VlV~p 49 (78)
T cd05792 9 SKGNNLHEVETPNGSRYLVSMPT-KFRKNIWIKRGDFVLVEP 49 (78)
T ss_pred cCCCcEEEEEcCCCCEEEEEech-hhcccEEEEeCCEEEEEe
Confidence 33444333333366666654322 2222 78888888864
No 57
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=36.21 E-value=1.1e+02 Score=20.52 Aligned_cols=28 Identities=11% Similarity=0.235 Sum_probs=18.3
Q ss_pred CCCCCCCeEEEEecCCCCCceEEEEEEEe
Q 031448 63 VGRLGPGDIVFVRSPVDPNKIVTKRIVGV 91 (159)
Q Consensus 63 ~~~~~~GDiVvf~~p~~~~~~~vkRVi~~ 91 (159)
.+.++.||.++|..-.+ +..+.-+|+.+
T Consensus 29 r~~ikvGD~I~f~~~~~-~~~l~v~V~~i 56 (109)
T cd06555 29 RQQIKVGDKILFNDLDT-GQQLLVKVVDI 56 (109)
T ss_pred hhcCCCCCEEEEEEcCC-CcEEEEEEEEE
Confidence 35799999999986332 34455555543
No 58
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=35.87 E-value=52 Score=19.28 Aligned_cols=13 Identities=31% Similarity=0.509 Sum_probs=4.9
Q ss_pred CCCCCeEEEEecC
Q 031448 65 RLGPGDIVFVRSP 77 (159)
Q Consensus 65 ~~~~GDiVvf~~p 77 (159)
+++.||-|-+.+|
T Consensus 5 pf~~GdrVQlTD~ 17 (54)
T PF14801_consen 5 PFRAGDRVQLTDP 17 (54)
T ss_dssp S--TT-EEEEEET
T ss_pred CCCCCCEEEEccC
Confidence 4445555555443
No 59
>smart00002 PLP Myelin proteolipid protein (PLP or lipophilin).
Probab=34.53 E-value=12 Score=22.54 Aligned_cols=20 Identities=35% Similarity=0.705 Sum_probs=15.8
Q ss_pred CCCCCCccccccCCCeEEEE
Q 031448 126 ASRDSRQFGPVPYGLIEGKA 145 (159)
Q Consensus 126 ~s~DSR~~G~V~~~~I~G~v 145 (159)
-..|-|.||.+|-...=||+
T Consensus 22 lC~D~RQyGilpwna~pgK~ 41 (60)
T smart00002 22 LCVDARQYGILPWNAFPGKV 41 (60)
T ss_pred EEeechhcceeecCCCCCch
Confidence 46899999999877766664
No 60
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=34.06 E-value=60 Score=23.06 Aligned_cols=38 Identities=13% Similarity=-0.076 Sum_probs=26.4
Q ss_pred EEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecC
Q 031448 37 LVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSP 77 (159)
Q Consensus 37 ~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p 77 (159)
...+.+|...|. ..-+..+..-. ..++++|||++....
T Consensus 50 ~~nT~tl~~~L~-~~G~~~I~~~~--~~~~q~GDI~I~g~~ 87 (145)
T PF05382_consen 50 AGNTETLHDWLK-KNGFKKISENV--DWNLQRGDIFIWGRR 87 (145)
T ss_pred ccCHHHHHHHHh-hCCcEEeccCC--cccccCCCEEEEcCC
Confidence 456788888887 55566664421 147899999998764
No 61
>PF13759 2OG-FeII_Oxy_5: Putative 2OG-Fe(II) oxygenase; PDB: 3BVC_B 2RG4_A.
Probab=33.37 E-value=63 Score=20.87 Aligned_cols=24 Identities=21% Similarity=0.242 Sum_probs=12.8
Q ss_pred CCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448 65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEGD 94 (159)
Q Consensus 65 ~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd 94 (159)
+++.||+|+|.. .+.|+|..-.+|
T Consensus 69 ~p~~G~lvlFPs------~l~H~v~p~~~~ 92 (101)
T PF13759_consen 69 EPEEGDLVLFPS------WLWHGVPPNNSD 92 (101)
T ss_dssp ---TTEEEEEET------TSEEEE----SS
T ss_pred CCCCCEEEEeCC------CCEEeccCcCCC
Confidence 688999999974 466777766555
No 62
>COG0234 GroS Co-chaperonin GroES (HSP10) [Posttranslational modification, protein turnover, chaperones]
Probab=32.27 E-value=1.5e+02 Score=19.55 Aligned_cols=70 Identities=23% Similarity=0.227 Sum_probs=35.1
Q ss_pred CCCcEEEEEeccc-------------CCCCCCCCeEEEEecCC-CCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecC
Q 031448 49 LTGDVILAEYVSH-------------RVGRLGPGDIVFVRSPV-DPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPK 114 (159)
Q Consensus 49 ~~Gd~vlv~~~~~-------------~~~~~~~GDiVvf~~p~-~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~ 114 (159)
|-||+|++.+... ...++++|.+|+...-. +.+...+ ..----||+|-+.. ....+.++..
T Consensus 5 PL~DRVlVk~~e~EekT~gGIvlpdsakeK~~~g~VvAVG~G~~~~~g~~~-~~~VkvGD~Vlf~k----y~G~evk~dg 79 (96)
T COG0234 5 PLGDRVLVKRVEEEEKTAGGIVLPDSAKEKPQEGEVVAVGPGRRDENGELV-PLDVKVGDRVLFGK----YAGTEVKIDG 79 (96)
T ss_pred ecCCEEEEEEchhhccccCcEEecCccccCCcceEEEEEccceecCCCCEe-ccccccCCEEEECc----cCCcEEEECC
Confidence 4578888876531 12356777777776411 1111111 11122477776632 1124455555
Q ss_pred CeEEEEcCC
Q 031448 115 GHVWIQGDN 123 (159)
Q Consensus 115 ~~~~v~gdn 123 (159)
.+|.++.+.
T Consensus 80 eeylil~e~ 88 (96)
T COG0234 80 EEYLILSES 88 (96)
T ss_pred EEEEEechH
Confidence 667766554
No 63
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=31.63 E-value=1.3e+02 Score=18.61 Aligned_cols=34 Identities=26% Similarity=0.433 Sum_probs=22.8
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEE--------EeCCCEEEEe
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIV--------GVEGDRVTYF 99 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi--------~~pGd~v~i~ 99 (159)
+.++.||-|.+.+ . ....-+|.+. |.+||.+.+.
T Consensus 25 G~i~~Gd~v~i~P-~-~~~~~V~si~~~~~~~~~a~aGd~v~~~ 66 (83)
T cd03698 25 GSIQKGDTLLVMP-S-KESVEVKSIYVDDEEVDYAVAGENVRLK 66 (83)
T ss_pred eEEeCCCEEEEeC-C-CcEEEEEEEEECCeECCEECCCCEEEEE
Confidence 6788888888864 2 2345666665 7778877653
No 64
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=30.90 E-value=68 Score=20.77 Aligned_cols=11 Identities=27% Similarity=0.271 Sum_probs=6.2
Q ss_pred CCCCeEEEEec
Q 031448 66 LGPGDIVFVRS 76 (159)
Q Consensus 66 ~~~GDiVvf~~ 76 (159)
+..||.|..+.
T Consensus 47 Il~GD~V~VE~ 57 (87)
T PRK12442 47 ILAGDRVTLEL 57 (87)
T ss_pred ecCCCEEEEEE
Confidence 45566666554
No 65
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=30.44 E-value=58 Score=21.53 Aligned_cols=10 Identities=40% Similarity=0.873 Sum_probs=7.1
Q ss_pred CCCCeEEEEe
Q 031448 66 LGPGDIVFVR 75 (159)
Q Consensus 66 ~~~GDiVvf~ 75 (159)
+++||+|...
T Consensus 58 I~~GD~VlVs 67 (99)
T TIGR00523 58 IREGDVVIVK 67 (99)
T ss_pred ecCCCEEEEE
Confidence 6777777773
No 66
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=30.25 E-value=68 Score=20.93 Aligned_cols=29 Identities=28% Similarity=0.303 Sum_probs=19.0
Q ss_pred cCCCCcEEEEEecccC-----CCCCCCCeEEEEec
Q 031448 47 LNLTGDVILAEYVSHR-----VGRLGPGDIVFVRS 76 (159)
Q Consensus 47 l~~~Gd~vlv~~~~~~-----~~~~~~GDiVvf~~ 76 (159)
+. .|-.++++...+. ...++.||+|+|-+
T Consensus 58 lr-pGiI~LINd~DWeLleke~y~ledgDiIvfis 91 (96)
T COG5131 58 LR-PGIICLINDMDWELLEKERYPLEDGDIIVFIS 91 (96)
T ss_pred Cc-ccEEEEEcCccHhhhhcccccCCCCCEEEEEe
Confidence 44 5777777765432 24578888888864
No 67
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=30.21 E-value=62 Score=18.35 Aligned_cols=9 Identities=11% Similarity=0.110 Sum_probs=3.7
Q ss_pred hHHHHHHHH
Q 031448 4 WGLLAKEAL 12 (159)
Q Consensus 4 ~~~~~~~~~ 12 (159)
|+..++++.
T Consensus 5 ~~~~~~~f~ 13 (56)
T PF12911_consen 5 WKDAWRRFR 13 (56)
T ss_pred HHHHHHHHH
Confidence 344444433
No 68
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=30.03 E-value=1.4e+02 Score=18.43 Aligned_cols=34 Identities=21% Similarity=0.320 Sum_probs=22.7
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEE--------EeCCCEEEEe
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIV--------GVEGDRVTYF 99 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi--------~~pGd~v~i~ 99 (159)
..++.||-+.+.+. +...-+|.+. |.+||.+.+.
T Consensus 24 G~i~~G~~v~i~P~--~~~~~V~si~~~~~~~~~a~aGd~v~l~ 65 (82)
T cd04089 24 GTIKKGDKLLVMPN--KTQVEVLSIYNEDVEVRYARPGENVRLR 65 (82)
T ss_pred eEEecCCEEEEeCC--CcEEEEEEEEECCEECCEECCCCEEEEE
Confidence 67888888888642 2345667766 6677766653
No 69
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=29.10 E-value=85 Score=22.75 Aligned_cols=24 Identities=29% Similarity=0.252 Sum_probs=17.6
Q ss_pred CCCCccccccCCCeEEEEEEEEeC
Q 031448 128 RDSRQFGPVPYGLIEGKAFFRVWP 151 (159)
Q Consensus 128 ~DSR~~G~V~~~~I~G~v~~~~~p 151 (159)
+=|++...+|.+.|.||.......
T Consensus 85 F~S~~~d~~p~~~IrGKC~V~~~~ 108 (164)
T cd04709 85 FLSRQVETLPATHIRGKCSVTLLN 108 (164)
T ss_pred EEecccccccHHHeeeeEEEEEeh
Confidence 345566789999999998765543
No 70
>PF00278 Orn_DAP_Arg_deC: Pyridoxal-dependent decarboxylase, C-terminal sheet domain; InterPro: IPR022643 These enzymes are collectively known as group IV decarboxylases []. Pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates can be classified into two different families on the basis of sequence similarities [, ]. Members of this family while most probably evolutionary related, do not share extensive regions of sequence similarities. The proteins contain a conserved lysine residue which is known, in mouse ODC [], to be the site of attachment of the pyridoxal-phosphate group. The proteins also contain a stretch of three consecutive glycine residues and has been proposed to be part of a substrate- binding region []. This entry represents the C-terminal region of the Orn/DAP/Arg decarboxylases.; GO: 0003824 catalytic activity; PDB: 1TWI_B 1TUF_A 3MT1_A 3N2B_C 2O0T_A 1HKW_A 1HKV_A 3VAB_A 3N2O_A 7ODC_A ....
Probab=28.84 E-value=94 Score=20.28 Aligned_cols=25 Identities=28% Similarity=0.426 Sum_probs=13.9
Q ss_pred CCcEEEEEecccCCCCCCCCeEEEEec
Q 031448 50 TGDVILAEYVSHRVGRLGPGDIVFVRS 76 (159)
Q Consensus 50 ~Gd~vlv~~~~~~~~~~~~GDiVvf~~ 76 (159)
.+|.+.-+...+ .+++.||+++|..
T Consensus 69 ~~D~i~~~~~lP--~~l~~GD~l~f~~ 93 (116)
T PF00278_consen 69 SGDVIARDVMLP--KELEVGDWLVFEN 93 (116)
T ss_dssp TTSEEEEEEEEE--STTTTT-EEEESS
T ss_pred CCceEeeeccCC--CCCCCCCEEEEec
Confidence 566665322211 2778888888864
No 71
>PRK05483 rplN 50S ribosomal protein L14; Validated
Probab=28.65 E-value=2e+02 Score=19.78 Aligned_cols=27 Identities=26% Similarity=0.425 Sum_probs=19.7
Q ss_pred cCCeEEEEcCCCCCCCCCCccccccCCC
Q 031448 113 PKGHVWIQGDNLYASRDSRQFGPVPYGL 140 (159)
Q Consensus 113 p~~~~~v~gdn~~~s~DSR~~G~V~~~~ 140 (159)
.+|.+-++.++. +-.-+|-+|||+++-
T Consensus 80 ~dNavVLin~~~-~p~GTrI~Gpv~~el 106 (122)
T PRK05483 80 DDNAAVLLNNDG-EPRGTRIFGPVAREL 106 (122)
T ss_pred CCCEEEEECCCC-CEeEeEEeccchHHH
Confidence 456666666653 667889999999764
No 72
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=26.99 E-value=94 Score=18.99 Aligned_cols=12 Identities=50% Similarity=0.634 Sum_probs=9.7
Q ss_pred CCCCCeEEEEec
Q 031448 65 RLGPGDIVFVRS 76 (159)
Q Consensus 65 ~~~~GDiVvf~~ 76 (159)
.+..||+|.++.
T Consensus 46 ~i~vGD~V~ve~ 57 (72)
T PRK00276 46 RILPGDKVTVEL 57 (72)
T ss_pred ccCCCCEEEEEE
Confidence 478899999984
No 73
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=26.97 E-value=1.1e+02 Score=21.39 Aligned_cols=28 Identities=18% Similarity=0.176 Sum_probs=21.2
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEEEe
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIVGV 91 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi~~ 91 (159)
..++.||-|.+.++..+..++|.||...
T Consensus 10 ~~~~vgD~Vyv~~~~~~ePyyIgrI~e~ 37 (135)
T cd04710 10 ELLKVNDHIYMSSEPPGEPYYIGRIMEF 37 (135)
T ss_pred eEEeCCCEEEEecCCCCCCCEEEEEEEE
Confidence 4678899999986544566789998874
No 74
>PF09163 Form-deh_trans: Formate dehydrogenase N, transmembrane; InterPro: IPR015246 The transmembrane domain of the beta subunit of formate dehydrogenase consists of a single transmembrane helix. This domain acts as a transmembrane anchor, allowing the conduction of electrons within the protein []. ; PDB: 1KQG_B 1KQF_B.
Probab=26.78 E-value=1e+02 Score=17.21 Aligned_cols=25 Identities=20% Similarity=-0.116 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 031448 7 LAKEALTQTLTFARFFCLFHVTNHY 31 (159)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~ 31 (159)
++|.+++.+..+++...++..+.+|
T Consensus 7 lWKg~~Kpl~~~~~~~~~~~~~~Hy 31 (44)
T PF09163_consen 7 LWKGVLKPLGAAGMGATAAAGFFHY 31 (44)
T ss_dssp HHHTTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666666655555555444
No 75
>TIGR03170 flgA_cterm flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666.
Probab=26.14 E-value=2e+02 Score=19.05 Aligned_cols=67 Identities=21% Similarity=0.188 Sum_probs=35.3
Q ss_pred ccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEe----CCCEEEEeCCCCCCCcceEEecCC
Q 031448 46 TLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGV----EGDRVTYFKPRNGDSCHTVVVPKG 115 (159)
Q Consensus 46 tl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~----pGd~v~i~~~~~~~~~~~~~vp~~ 115 (159)
.+. .|+.+.-+.+. ...-+++||.|...... ++-.+--.-.|+ .||.|.++|.............+|
T Consensus 48 ~i~-~G~~i~~~~l~-~~~~V~~G~~V~i~~~~-~~~~i~~~g~Al~~g~~G~~I~V~N~~s~k~i~~~V~~~g 118 (122)
T TIGR03170 48 PLR-AGQPLTANMLR-PPWLVKRGDTVTVIARG-GGLSVTTEGKALEDGAVGDQIRVRNLSSGKIISGIVTGPG 118 (122)
T ss_pred ccC-CCCeeChHhcC-CccEEcCCCEEEEEEec-CCEEEEEEEEEccccCCCCEEEEEECCCCCEEEEEEeCCC
Confidence 344 56655443332 12357888888877632 333344444443 588888876543333333333333
No 76
>TIGR02219 phage_NlpC_fam putative phage cell wall peptidase, NlpC/P60 family. Members of this family show sequence similarity to members of the NlpC/P60 family described by Pfam model pfam00877 and by Anantharaman and Aravind (PubMed:12620121). The NlpC/P60 family includes a number of characterized bacterial cell wall hydrolases. Members of this related family are all found in prophage regions of bacterial genomes.
Probab=26.13 E-value=1.1e+02 Score=21.04 Aligned_cols=13 Identities=31% Similarity=0.582 Sum_probs=11.0
Q ss_pred CCCCCCeEEEEec
Q 031448 64 GRLGPGDIVFVRS 76 (159)
Q Consensus 64 ~~~~~GDiVvf~~ 76 (159)
.++++||+|.|..
T Consensus 75 ~~~qpGDlvff~~ 87 (134)
T TIGR02219 75 DAAQPGDVLVFRW 87 (134)
T ss_pred hcCCCCCEEEEee
Confidence 4789999999974
No 77
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=26.00 E-value=1.7e+02 Score=18.33 Aligned_cols=30 Identities=23% Similarity=0.430 Sum_probs=18.1
Q ss_pred CCCCCeEEEEecCC-----CCCceEEEEEEEeCCC
Q 031448 65 RLGPGDIVFVRSPV-----DPNKIVTKRIVGVEGD 94 (159)
Q Consensus 65 ~~~~GDiVvf~~p~-----~~~~~~vkRVi~~pGd 94 (159)
.++.||.|+.+... ..+...+..|+...|.
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~gg 39 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGG 39 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEEecc
Confidence 56677777776532 1245677777766553
No 78
>PF14118 YfzA: YfzA-like protein
Probab=25.98 E-value=61 Score=21.27 Aligned_cols=33 Identities=21% Similarity=0.280 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcE
Q 031448 13 TQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDV 53 (159)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~ 53 (159)
.|+..+++++++-+++- .+.+.|+.|.++ +|++
T Consensus 12 ~W~~~L~iF~i~QLlFi-------~~d~t~w~pnf~-~g~~ 44 (94)
T PF14118_consen 12 RWFITLGIFLIVQLLFI-------IFDGTGWGPNFN-EGDF 44 (94)
T ss_pred hHHHHHHHHHHHHHHHH-------HhhccccccccC-CCch
Confidence 35555554444433331 356899999998 6773
No 79
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=25.57 E-value=1e+02 Score=20.27 Aligned_cols=36 Identities=22% Similarity=0.268 Sum_probs=24.6
Q ss_pred EEEeCCCCccccCCCCcEEEEEecccC-----CCCCCCCeEEEEec
Q 031448 36 TLVFGPSMLPTLNLTGDVILAEYVSHR-----VGRLGPGDIVFVRS 76 (159)
Q Consensus 36 ~~v~~~SM~Ptl~~~Gd~vlv~~~~~~-----~~~~~~GDiVvf~~ 76 (159)
..+.++|..| |-.+++|...+. ...++.||.|+|-+
T Consensus 56 lFi~~gsvrp-----Gii~lINd~DWEllekedy~ledgD~ivfiS 96 (101)
T KOG4146|consen 56 LFIHHGSVRP-----GIIVLINDMDWELLEKEDYPLEDGDHIVFIS 96 (101)
T ss_pred eEeeCCcCcC-----cEEEEEeccchhhhcccccCcccCCEEEEEE
Confidence 5666777654 667788765431 24688999999865
No 80
>PTZ00414 10 kDa heat shock protein; Provisional
Probab=25.11 E-value=2.1e+02 Score=18.94 Aligned_cols=27 Identities=11% Similarity=0.202 Sum_probs=16.3
Q ss_pred cccCCCCcEEEEEecccCCCCCCCCeEEE
Q 031448 45 PTLNLTGDVILAEYVSHRVGRLGPGDIVF 73 (159)
Q Consensus 45 Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv 73 (159)
+.|.|-||+|++.+... .+-..|-|++
T Consensus 10 ~~ikPL~dRVLVk~~~~--e~kT~gGIiL 36 (100)
T PTZ00414 10 KKLQPLGQRVLVKRTLA--AKQTKAGVLI 36 (100)
T ss_pred ccceecCCEEEEEEccc--ccccccCEEc
Confidence 44666799999987532 2334455544
No 81
>CHL00010 infA translation initiation factor 1
Probab=25.07 E-value=1.1e+02 Score=19.13 Aligned_cols=12 Identities=50% Similarity=0.595 Sum_probs=9.3
Q ss_pred CCCCCeEEEEec
Q 031448 65 RLGPGDIVFVRS 76 (159)
Q Consensus 65 ~~~~GDiVvf~~ 76 (159)
.+..||.|.|+.
T Consensus 46 ~~~vGD~V~ve~ 57 (78)
T CHL00010 46 RILPGDRVKVEL 57 (78)
T ss_pred ccCCCCEEEEEE
Confidence 367799999984
No 82
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=25.05 E-value=2.2e+02 Score=18.98 Aligned_cols=29 Identities=24% Similarity=0.345 Sum_probs=22.9
Q ss_pred CCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448 63 VGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD 94 (159)
Q Consensus 63 ~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd 94 (159)
..+++.||++.+.. ++..+.-+|.+++..
T Consensus 46 S~~VK~GD~l~i~~---~~~~~~v~Vl~~~~~ 74 (100)
T COG1188 46 SKEVKVGDILTIRF---GNKEFTVKVLALGEQ 74 (100)
T ss_pred ccccCCCCEEEEEe---CCcEEEEEEEecccc
Confidence 36899999999997 446777788888763
No 83
>PRK10507 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional
Probab=24.79 E-value=4.1e+02 Score=23.72 Aligned_cols=57 Identities=12% Similarity=0.092 Sum_probs=36.3
Q ss_pred CCCCCCeEEEEecCCC-CCceEEEEEEEeCCCEEEEeCCCCC------CC----cceEEecCCeEEEE
Q 031448 64 GRLGPGDIVFVRSPVD-PNKIVTKRIVGVEGDRVTYFKPRNG------DS----CHTVVVPKGHVWIQ 120 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~-~~~~~vkRVi~~pGd~v~i~~~~~~------~~----~~~~~vp~~~~~v~ 120 (159)
..|+.||+++|..... ...=.|-=|..+..+.|.|-++... .. ..+.+..+|.|++.
T Consensus 110 ~~P~~gdLlI~~~~~~~~p~GHVAVVt~V~~~~V~iaeQN~~~~~w~~~~~~sR~l~l~~~~g~~~i~ 177 (619)
T PRK10507 110 RAPEAGALLIWDKGGEFKDTGHVAIITQLHGNKVRIAEQNVIHSPLPQGQQWTRELEMVVENGCYTLK 177 (619)
T ss_pred CCCCCCcEEEeCCCCCCCCCceEEEEEEEcCCeEEEEeccccccCCCCCCCeeeEEEEEEeCCEEEEE
Confidence 6899999999984211 1122566777888899999754321 11 12344467888886
No 84
>PF15428 Imm14: Immunity protein 14
Probab=24.70 E-value=1.3e+02 Score=20.23 Aligned_cols=22 Identities=32% Similarity=0.510 Sum_probs=16.6
Q ss_pred CCCeEEEEecCCCCCceEEEEEEE
Q 031448 67 GPGDIVFVRSPVDPNKIVTKRIVG 90 (159)
Q Consensus 67 ~~GDiVvf~~p~~~~~~~vkRVi~ 90 (159)
|.|||..+..+ .+.+...||++
T Consensus 1 K~GDIF~ipL~--~~~y~~G~Vi~ 22 (129)
T PF15428_consen 1 KPGDIFCIPLD--DGKYGFGRVIG 22 (129)
T ss_pred CCceEEEEEcC--CCCEEEEEEEe
Confidence 56888888764 56778888883
No 85
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=24.64 E-value=1.5e+02 Score=17.07 Aligned_cols=22 Identities=0% Similarity=-0.135 Sum_probs=10.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 031448 4 WGLLAKEALTQTLTFARFFCLF 25 (159)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~ 25 (159)
|+.+++.+...+..++++++++
T Consensus 37 ~~~~l~~~~~p~~~iL~~~a~i 58 (64)
T smart00831 37 LLRFLRQFHNPLIYILLAAAVL 58 (64)
T ss_pred HHHHHHHHHhHHHHHHHHHHHH
Confidence 4455555555544444444443
No 86
>PF13144 SAF_2: SAF-like
Probab=24.48 E-value=2.8e+02 Score=20.10 Aligned_cols=69 Identities=17% Similarity=0.182 Sum_probs=38.3
Q ss_pred cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEe----CCCEEEEeCCCCCCCcceEEecCCe
Q 031448 45 PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGV----EGDRVTYFKPRNGDSCHTVVVPKGH 116 (159)
Q Consensus 45 Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~----pGd~v~i~~~~~~~~~~~~~vp~~~ 116 (159)
=++. .|+.+.-+.+.. ..-+++||.|...... ++-.+.-...|+ .||+|.+++..........++.+|.
T Consensus 121 r~i~-~G~~i~~~~l~~-~~~V~~G~~V~v~~~~-g~i~i~~~g~Al~~G~~G~~I~V~N~~S~k~v~g~V~~~~~ 193 (196)
T PF13144_consen 121 RNIR-AGQPITPSDLEP-PPLVKRGDIVTVIARS-GGISISTEGKALEDGALGDTIRVKNLSSGKIVQGRVIGPGT 193 (196)
T ss_pred EEcC-CCCEeeeccccc-ceecCCCCEEEEEEEe-CCEEEEEEEEEccCCCCCCEEEEEECCCCCEEEEEEecCCE
Confidence 3455 677666655432 2467899988876532 333444444444 5888888865433333333344443
No 87
>PF09285 Elong-fact-P_C: Elongation factor P, C-terminal; InterPro: IPR015365 These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology []. ; GO: 0043043 peptide biosynthetic process, 0005737 cytoplasm; PDB: 1YBY_A 3OYY_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H.
Probab=24.13 E-value=1.6e+02 Score=17.28 Aligned_cols=38 Identities=24% Similarity=0.225 Sum_probs=20.1
Q ss_pred CCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEE
Q 031448 41 PSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKR 87 (159)
Q Consensus 41 ~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkR 87 (159)
.++.|..--.|-.+.+.. -++.||.|..+. .+..|+.|
T Consensus 19 ~~~K~A~letG~~i~VP~------FI~~Gd~I~VdT---~~g~Yv~R 56 (56)
T PF09285_consen 19 SSYKPATLETGAEIQVPL------FIEEGDKIKVDT---RDGSYVER 56 (56)
T ss_dssp TTEEEEEETTS-EEEEET------T--TT-EEEEET---TTTEEEEE
T ss_pred CCccEEEEcCCCEEEccc------eecCCCEEEEEC---CCCeEeCC
Confidence 344553321666666654 678999999985 23456655
No 88
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein.
Probab=23.94 E-value=1e+02 Score=28.43 Aligned_cols=36 Identities=17% Similarity=0.226 Sum_probs=27.9
Q ss_pred CCCCCCeEEEEecCCC--CCceEEEEEEEeCCCEEEEe
Q 031448 64 GRLGPGDIVFVRSPVD--PNKIVTKRIVGVEGDRVTYF 99 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~--~~~~~vkRVi~~pGd~v~i~ 99 (159)
+.+..||+|+|+.+.. .....-+||.-+||.|+.+-
T Consensus 406 rhl~dgd~vl~NRqPsLHr~si~a~~~~v~~~~t~r~n 443 (868)
T TIGR02390 406 RHLIDGDIVLFNRQPSLHRMSMMGHKVKVLPGKTFRLN 443 (868)
T ss_pred EehhcCccceeccCCccccccceeEEEEEecCceEeec
Confidence 4788999999987532 23457789999999998874
No 89
>smart00663 RPOLA_N RNA polymerase I subunit A N-terminus.
Probab=23.67 E-value=2.1e+02 Score=22.80 Aligned_cols=36 Identities=19% Similarity=0.275 Sum_probs=27.3
Q ss_pred CCCCCCeEEEEecCCC--CCceEEEEEEEeCCCEEEEe
Q 031448 64 GRLGPGDIVFVRSPVD--PNKIVTKRIVGVEGDRVTYF 99 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~--~~~~~vkRVi~~pGd~v~i~ 99 (159)
+.+..||+|+|+.+.. .....-+|+.-++|.++.+-
T Consensus 197 r~l~dgd~Vl~NRqPsLHr~si~a~~v~v~~~~tir~n 234 (295)
T smart00663 197 RHVIDGDVVLFNRQPTLHRMSIQAHRVRVLEGKTIRLN 234 (295)
T ss_pred eehhcCCEEEEecCCccccccceeEEEEEecCceEEec
Confidence 4788899999987532 23457788888999888874
No 90
>PRK14533 groES co-chaperonin GroES; Provisional
Probab=23.47 E-value=2.2e+02 Score=18.46 Aligned_cols=82 Identities=18% Similarity=0.151 Sum_probs=39.2
Q ss_pred CCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeC-CCEEEEeCCCCCCCcceEEecCCeEEEEcCCCCC-
Q 031448 49 LTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVE-GDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYA- 126 (159)
Q Consensus 49 ~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~p-Gd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~~- 126 (159)
|-||+|++.+... .+-..|-|++=... ........|+|+. |.. ..+..+..|..-+.++....
T Consensus 5 Pl~DRVLVk~~~~--e~~T~gGI~Lp~~a--~ek~~~G~VvavG~g~~-----------~~~~~Vk~GD~Vl~~~y~g~e 69 (91)
T PRK14533 5 PLGERLLIKPIKE--EKKTEGGIVLPDSA--KEKPMKAEVVAVGKLDD-----------EEDFDIKVGDKVIFSKYAGTE 69 (91)
T ss_pred EcCCEEEEEEccc--cceecccEEecccc--cCCcceEEEEEECCCCc-----------cccccccCCCEEEEccCCCeE
Confidence 4689999987532 23445666654321 2234445566553 210 11233444444344433211
Q ss_pred -CCCCCccccccCCCeEEEE
Q 031448 127 -SRDSRQFGPVPYGLIEGKA 145 (159)
Q Consensus 127 -s~DSR~~G~V~~~~I~G~v 145 (159)
..|...|=.++.++|+|++
T Consensus 70 v~~~~~~y~iv~e~DILa~i 89 (91)
T PRK14533 70 IKIDDEDYIIIDVNDILAKI 89 (91)
T ss_pred EEECCEEEEEEEhHhEEEEe
Confidence 1233334467777777764
No 91
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=23.37 E-value=1.1e+02 Score=16.47 Aligned_cols=21 Identities=33% Similarity=0.411 Sum_probs=17.6
Q ss_pred CCCceEEEEEEEeCCCEEEEe
Q 031448 79 DPNKIVTKRIVGVEGDRVTYF 99 (159)
Q Consensus 79 ~~~~~~vkRVi~~pGd~v~i~ 99 (159)
....++..+|+...||.+++.
T Consensus 9 ~~egfv~g~I~~~~g~~vtV~ 29 (42)
T PF02736_consen 9 PKEGFVKGEIIEEEGDKVTVK 29 (42)
T ss_dssp SSSSEEEEEEEEEESSEEEEE
T ss_pred CcccEEEEEEEEEcCCEEEEE
Confidence 356788899999999998885
No 92
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=22.78 E-value=1.2e+02 Score=20.96 Aligned_cols=15 Identities=33% Similarity=0.483 Sum_probs=10.1
Q ss_pred CCCCCCeEEEEecCC
Q 031448 64 GRLGPGDIVFVRSPV 78 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~ 78 (159)
+.++.||.++|..+.
T Consensus 38 ~~mk~GD~vifY~s~ 52 (143)
T PF01878_consen 38 KRMKPGDKVIFYHSG 52 (143)
T ss_dssp HC--TT-EEEEEETS
T ss_pred hcCCCCCEEEEEEcC
Confidence 479999999999865
No 93
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=22.29 E-value=2.2e+02 Score=18.16 Aligned_cols=36 Identities=22% Similarity=0.106 Sum_probs=23.0
Q ss_pred cEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEE
Q 031448 52 DVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVG 90 (159)
Q Consensus 52 d~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~ 90 (159)
.++.+++-......++.||.|....+.+ .+.-+|.-
T Consensus 30 ~~v~inp~dA~~~Gi~~Gd~V~v~s~~G---~v~~~v~~ 65 (110)
T PF01568_consen 30 PFVEINPEDAAKLGIKDGDWVRVSSPRG---SVEVRVKV 65 (110)
T ss_dssp EEEEEEHHHHHHCT--TTCEEEEEETTE---EEEEEEEE
T ss_pred CEEEEcHHHHHHhcCcCCCEEEEEeccc---eEeeeeEE
Confidence 4888887655556899999999997542 44444443
No 94
>TIGR01657 P-ATPase-V P-type ATPase of unknown pump specificity (type V). These P-type ATPases form a distinct clade but the substrate of their pumping activity has yet to be determined. This clade has been designated type V in.
Probab=22.17 E-value=6.3e+02 Score=23.93 Aligned_cols=23 Identities=35% Similarity=0.557 Sum_probs=16.9
Q ss_pred CCcEEEEEecccCCCCCCCCeEEEEecC
Q 031448 50 TGDVILAEYVSHRVGRLGPGDIVFVRSP 77 (159)
Q Consensus 50 ~Gd~vlv~~~~~~~~~~~~GDiVvf~~p 77 (159)
+|....+.. .++..||+|..+.|
T Consensus 236 dg~~~~I~s-----~eLvpGDiv~l~~~ 258 (1054)
T TIGR01657 236 NGKWVTIAS-----DELVPGDIVSIPRP 258 (1054)
T ss_pred CCEEEEEEc-----ccCCCCCEEEEecC
Confidence 566555543 68999999999843
No 95
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=22.14 E-value=1.2e+02 Score=19.71 Aligned_cols=77 Identities=17% Similarity=0.191 Sum_probs=38.0
Q ss_pred CCCCCeEEEEecCCC--CCceEEEEEEEeCCC-----EEEEe---CCCCCCCcceEEecCCeEEEEcCCCCCCCCCCccc
Q 031448 65 RLGPGDIVFVRSPVD--PNKIVTKRIVGVEGD-----RVTYF---KPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFG 134 (159)
Q Consensus 65 ~~~~GDiVvf~~p~~--~~~~~vkRVi~~pGd-----~v~i~---~~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G 134 (159)
.++.||.|.+..+.. ...+++-||..+--+ .+.+. -+............+++.|...+. .
T Consensus 3 ~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~~~~~~~~v~wf~rp~e~~~~~~~~~~~~Elf~s~~~----------~ 72 (123)
T cd04370 3 TYEVGDSVYVEPDDSIKSDPPYIARIEELWEDTNGSKQVKVRWFYRPEETPKGLSPFALRRELFLSDHL----------D 72 (123)
T ss_pred EEecCCEEEEecCCcCCCCCCEEEEEeeeeECCCCCEEEEEEEEEchhHhccccccccccceeEEecCc----------c
Confidence 356677777765443 355677777665332 11111 010000000112345566654322 2
Q ss_pred cccCCCeEEEEEEEEeC
Q 031448 135 PVPYGLIEGKAFFRVWP 151 (159)
Q Consensus 135 ~V~~~~I~G~v~~~~~p 151 (159)
-++.+.|.|++.....+
T Consensus 73 ~i~v~~I~gkc~V~~~~ 89 (123)
T cd04370 73 EIPVESIIGKCKVLFVS 89 (123)
T ss_pred ccCHHHhccccEEEech
Confidence 47778999998765544
No 96
>KOG0901 consensus 60S ribosomal protein L14/L17/L23 [Translation, ribosomal structure and biogenesis]
Probab=22.01 E-value=3e+02 Score=19.61 Aligned_cols=18 Identities=33% Similarity=0.289 Sum_probs=12.3
Q ss_pred CCCCCCCCCccccccCCC
Q 031448 123 NLYASRDSRQFGPVPYGL 140 (159)
Q Consensus 123 n~~~s~DSR~~G~V~~~~ 140 (159)
+...-.-||.+|||+.+.
T Consensus 113 ~~~e~~gs~i~G~v~~e~ 130 (145)
T KOG0901|consen 113 NKGEPKGSAITGPVGKEL 130 (145)
T ss_pred ccCccccceeccccChhH
Confidence 434556788888887754
No 97
>PF00166 Cpn10: Chaperonin 10 Kd subunit; InterPro: IPR020818 The chaperonins are `helper' molecules required for correct folding and subsequent assembly of some proteins []. These are required for normal cell growth [], and are stress-induced, acting to stabilise or protect disassembled polypeptides under heat-shock conditions. Type I chaperonins present in eubacteria, mitochondria and chloroplasts require the concerted action of 2 proteins, chaperonin 60 (cpn60) and chaperonin 10 (cpn10) []. The 10 kDa chaperonin (cpn10 - or groES in bacteria) exists as a ring-shaped oligomer of between six to eight identical subunits, while the 60 kDa chaperonin (cpn60 - or groEL in bacteria) forms a structure comprising 2 stacked rings, each ring containing 7 identical subunits []. These ring structures assemble by self-stimulation in the presence of Mg2+-ATP. The central cavity of the cylindrical cpn60 tetradecamer provides as isolated environment for protein folding whilst cpn-10 binds to cpn-60 and synchronizes the release of the folded protein in an Mg2+-ATP dependent manner []. The binding of cpn10 to cpn60 inhibits the weak ATPase activity of cpn60. Escherichia coli GroES has also been shown to bind ATP cooperatively, and with an affinity comparable to that of GroEL []. Each GroEL subunit contains three structurally distinct domains: an apical, an intermediate and an equatorial domain. The apical domain contains the binding sites for both GroES and the unfolded protein substrate. The equatorial domain contains the ATP-binding site and most of the oligomeric contacts. The intermediate domain links the apical and equatorial domains and transfers allosteric information between them. The GroEL oligomer is a tetradecamer, cylindrically shaped, that is organised in two heptameric rings stacked back to back. Each GroEL ring contains a central cavity, known as the `Anfinsen cage', that provides an isolated environment for protein folding. The identical 10 kDa subunits of GroES form a dome-like heptameric oligomer in solution. ATP binding to GroES may be important in charging the seven subunits of the interacting GroEL ring with ATP, to facilitate cooperative ATP binding and hydrolysis for substrate protein release.; GO: 0006457 protein folding, 0005737 cytoplasm; PDB: 1PF9_Q 1AON_P 1SX4_T 1SVT_R 2C7D_P 1PCQ_O 2C7C_Q 1GRU_Q 1WNR_F 1P3H_I ....
Probab=21.94 E-value=2.3e+02 Score=18.16 Aligned_cols=88 Identities=16% Similarity=0.069 Sum_probs=45.0
Q ss_pred CCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEEcCCCC--C
Q 031448 49 LTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLY--A 126 (159)
Q Consensus 49 ~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~--~ 126 (159)
|-+|+|++.+.. ..+-..|-+++=.. ........+|+|+...... .++. .-+..+..|..-+..+... -
T Consensus 4 Pl~drVLV~~~~--~e~~T~~GiiLp~~--~~~~~~~G~VvaVG~G~~~-~~g~----~~~~~vk~GD~Vl~~~~~g~~v 74 (93)
T PF00166_consen 4 PLGDRVLVKKIE--AEEKTASGIILPES--AKEKPNQGKVVAVGPGRYN-ENGE----EVPMDVKVGDKVLFPKYAGTEV 74 (93)
T ss_dssp ESTTEEEEEECS--CTCTCTTSCCE-CC--SSSSEEEEEEEEE-SEEET-TTSS----EEETSS-TTSEEEEETTTSEEE
T ss_pred ecCCEEEEEEcc--ccceecceEEeccc--cccccceeEEEEcCCcccc-CCCc----EeeeeeeeccEEeccccCceEE
Confidence 468999998853 24556666666532 2335677778877543222 1000 1122233444444444321 1
Q ss_pred CCCCCccccccCCCeEEEE
Q 031448 127 SRDSRQFGPVPYGLIEGKA 145 (159)
Q Consensus 127 s~DSR~~G~V~~~~I~G~v 145 (159)
..|...|=.++.++|.|+.
T Consensus 75 ~~~~~~~~~~~~~dIlavi 93 (93)
T PF00166_consen 75 KFDGEKYLIVREDDILAVI 93 (93)
T ss_dssp EETTEEEEEEEGGGEEEEE
T ss_pred EECCEEEEEEEHHHeEEEC
Confidence 2355556678888888763
No 98
>PLN02289 ribulose-bisphosphate carboxylase small chain
Probab=21.87 E-value=87 Score=22.95 Aligned_cols=27 Identities=19% Similarity=0.316 Sum_probs=20.2
Q ss_pred cceEEecCCeEEEEcCCCCCCCCCCcc
Q 031448 107 CHTVVVPKGHVWIQGDNLYASRDSRQF 133 (159)
Q Consensus 107 ~~~~~vp~~~~~v~gdn~~~s~DSR~~ 133 (159)
+-++..++|..+....+....+|.|||
T Consensus 96 clEf~~~~~~~~r~~~~s~~yyD~rYW 122 (176)
T PLN02289 96 CLEFELEHGFVYREHHRSPGYYDGRYW 122 (176)
T ss_pred eeeeccCCceeEecCCCCCCcccCcee
Confidence 456666777777777776788899986
No 99
>KOG2915 consensus tRNA(1-methyladenosine) methyltransferase, subunit GCD14 [Translation, ribosomal structure and biogenesis]
Probab=21.81 E-value=1.3e+02 Score=24.13 Aligned_cols=15 Identities=33% Similarity=0.747 Sum_probs=11.6
Q ss_pred ccccccCCCeEEEEE
Q 031448 132 QFGPVPYGLIEGKAF 146 (159)
Q Consensus 132 ~~G~V~~~~I~G~v~ 146 (159)
.||.++-++|+||-+
T Consensus 42 ~yGa~~h~~iIGK~~ 56 (314)
T KOG2915|consen 42 RYGALPHSDIIGKPY 56 (314)
T ss_pred cccccchhheecCCc
Confidence 468888888888853
No 100
>PF11623 DUF3252: Protein of unknown function (DUF3252); InterPro: IPR021659 This family of proteins has no known function. Some members are annotated as Ssl0352 however this cannot be confirmed. Currently there is no known function. ; PDB: 3C4S_B 2JZ2_A.
Probab=21.75 E-value=1.4e+02 Score=17.28 Aligned_cols=18 Identities=17% Similarity=0.085 Sum_probs=8.9
Q ss_pred eCCCEEEEeCCCCCCCcc
Q 031448 91 VEGDRVTYFKPRNGDSCH 108 (159)
Q Consensus 91 ~pGd~v~i~~~~~~~~~~ 108 (159)
+||-+|.++|+.+....+
T Consensus 3 lPG~~V~V~n~~~~Y~~y 20 (53)
T PF11623_consen 3 LPGSTVRVKNPNDIYYGY 20 (53)
T ss_dssp -TT-EEEE--TTSTTTT-
T ss_pred cCCCEEEEeCCCCccchh
Confidence 688888888766554443
No 101
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=21.52 E-value=1.7e+02 Score=22.58 Aligned_cols=33 Identities=24% Similarity=0.353 Sum_probs=23.6
Q ss_pred eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecC
Q 031448 35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSP 77 (159)
Q Consensus 35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p 77 (159)
...|.-+|-.|-+. .||+++ +++.||.+-+-=|
T Consensus 26 ~~~VyWNSSNp~F~-~~d~vI---------~v~igD~ldIiCP 58 (233)
T KOG3858|consen 26 LHPVYWNSSNPRFR-RGDYVI---------YVQIGDYLDIICP 58 (233)
T ss_pred ccceEecCCCccee-cCCceE---------EeccCCEEEEECC
Confidence 46777888899998 888554 4566787766433
No 102
>TIGR03673 rpl14p_arch 50S ribosomal protein L14P. Part of the 50S ribosomal subunit. Forms a cluster with proteins L3 and L24e, part of which may contact the 16S rRNA in 2 intersubunit bridges.
Probab=21.32 E-value=1.1e+02 Score=21.41 Aligned_cols=31 Identities=19% Similarity=0.158 Sum_probs=22.4
Q ss_pred eEEecCCeEEEEcCCCCCCCCCCccccccCCC
Q 031448 109 TVVVPKGHVWIQGDNLYASRDSRQFGPVPYGL 140 (159)
Q Consensus 109 ~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~ 140 (159)
.....+|.+-++.++. +-.-+|-+|||+++-
T Consensus 86 ~i~FddNa~VLin~~~-~P~GTRI~GpV~rEl 116 (131)
T TIGR03673 86 RVKFEDNAVVIVTPDG-EPKGTEIKGPVAREA 116 (131)
T ss_pred EEEeCCcEEEEECCCC-CEeeeEEEccchHHH
Confidence 3444566777777664 667889999999876
No 103
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=21.21 E-value=3.1e+02 Score=20.44 Aligned_cols=33 Identities=36% Similarity=0.378 Sum_probs=24.4
Q ss_pred CCCCCCCeEEEEecCCCCCceEEEEEEEeCCCE
Q 031448 63 VGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDR 95 (159)
Q Consensus 63 ~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~ 95 (159)
..-++.||+|.-+...-.....+-||.++.+-.
T Consensus 59 ~~~~K~GdiV~grV~~v~~~~a~V~i~~ve~~~ 91 (188)
T COG1096 59 PPLPKGGDIVYGRVTDVREQRALVRIVGVEGKE 91 (188)
T ss_pred CCCCCCCCEEEEEEeeccceEEEEEEEEEeccc
Confidence 346788888888776556677888888887743
No 104
>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=21.17 E-value=2.2e+02 Score=17.75 Aligned_cols=36 Identities=19% Similarity=0.278 Sum_probs=22.4
Q ss_pred CCCCCCeEEEEecCCCC--CceEEEEEE--------EeCCCEEEEe
Q 031448 64 GRLGPGDIVFVRSPVDP--NKIVTKRIV--------GVEGDRVTYF 99 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~--~~~~vkRVi--------~~pGd~v~i~ 99 (159)
..++.||-+.+.+..++ ...-+|.+- |.+||.+.+.
T Consensus 25 G~v~~g~~v~~~P~~~g~~~~~~V~sI~~~~~~~~~a~aGd~v~l~ 70 (87)
T cd03694 25 GVIRLGDTLLLGPDQDGSFRPVTVKSIHRNRSPVRVVRAGQSASLA 70 (87)
T ss_pred CEEeCCCEEEECCCCCCCEeEEEEEEEEECCeECCEECCCCEEEEE
Confidence 67888888888642211 244556655 6677777663
No 105
>COG2375 ViuB Siderophore-interacting protein [Inorganic ion transport and metabolism]
Probab=21.01 E-value=1e+02 Score=24.29 Aligned_cols=30 Identities=30% Similarity=0.520 Sum_probs=19.3
Q ss_pred EeCCCEEEEeCCCCCCCcceEEec--CCeEEEEcCCC
Q 031448 90 GVEGDRVTYFKPRNGDSCHTVVVP--KGHVWIQGDNL 124 (159)
Q Consensus 90 ~~pGd~v~i~~~~~~~~~~~~~vp--~~~~~v~gdn~ 124 (159)
|.+||++.+..+.-. ...+ .++|++.||-.
T Consensus 122 a~~GD~l~i~GP~g~-----~~p~~~~~~~lLigDet 153 (265)
T COG2375 122 AQPGDTLTIMGPRGS-----LVPPEAADWYLLIGDET 153 (265)
T ss_pred CCCCCEEEEeCCCCC-----CCCCCCcceEEEecccc
Confidence 468888888765422 2233 34788888864
No 106
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=20.76 E-value=1.1e+02 Score=17.91 Aligned_cols=12 Identities=50% Similarity=0.595 Sum_probs=9.8
Q ss_pred CCCCCeEEEEec
Q 031448 65 RLGPGDIVFVRS 76 (159)
Q Consensus 65 ~~~~GDiVvf~~ 76 (159)
.+..||.|.++.
T Consensus 40 ~~~vGD~V~~~~ 51 (64)
T cd04451 40 RILPGDRVKVEL 51 (64)
T ss_pred ccCCCCEEEEEE
Confidence 478899999984
No 107
>PTZ00054 60S ribosomal protein L23; Provisional
Probab=20.35 E-value=3.2e+02 Score=19.28 Aligned_cols=30 Identities=17% Similarity=0.078 Sum_probs=21.1
Q ss_pred EEecCCeEEEEcCCCCCCCCCCccccccCCC
Q 031448 110 VVVPKGHVWIQGDNLYASRDSRQFGPVPYGL 140 (159)
Q Consensus 110 ~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~ 140 (159)
....+|.+-++.++. +-.-+|-+|||+++-
T Consensus 95 i~F~dNA~VLin~~~-~p~GTRI~GpV~rEl 124 (139)
T PTZ00054 95 IYFEDNAGVIVNPKG-EMKGSAITGPVAKEC 124 (139)
T ss_pred EEeCCcEEEEECCCC-CEeeeEEeCchhHHH
Confidence 334556666666553 567889999999887
No 108
>PRK02565 photosystem II reaction center protein J; Provisional
Probab=20.32 E-value=54 Score=17.78 Aligned_cols=30 Identities=10% Similarity=0.161 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHhhceEEeEEEeCCCC
Q 031448 14 QTLTFARFFCLFHVTNHYLWSPTLVFGPSM 43 (159)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM 43 (159)
|+...+..+.++.++..|++..|.=.|+|+
T Consensus 10 WlV~tv~G~~vi~~vgiFfyGsY~GlGSsl 39 (39)
T PRK02565 10 WLVATVAGMGVIFVVGLFFYGSYAGLGSSL 39 (39)
T ss_pred eehhhhhHHHHHhheeeEEeecccccCCCC
Confidence 445555556666667777777776666653
No 109
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=20.07 E-value=1.7e+02 Score=19.99 Aligned_cols=27 Identities=19% Similarity=0.177 Sum_probs=14.3
Q ss_pred CCCCCCeEEEEecCCCCCceEEEEEEE
Q 031448 64 GRLGPGDIVFVRSPVDPNKIVTKRIVG 90 (159)
Q Consensus 64 ~~~~~GDiVvf~~p~~~~~~~vkRVi~ 90 (159)
..++.||-|+...+.....+.=..|++
T Consensus 54 ~~L~~GD~VLA~~~~~~~~Y~Pg~V~~ 80 (124)
T PF15057_consen 54 HSLQVGDKVLAPWEPDDCRYGPGTVIA 80 (124)
T ss_pred CcCCCCCEEEEecCcCCCEEeCEEEEE
Confidence 355666666665544333444456664
No 110
>COG3655 Predicted transcriptional regulator [Transcription]
Probab=20.05 E-value=85 Score=19.63 Aligned_cols=14 Identities=29% Similarity=0.261 Sum_probs=11.7
Q ss_pred CCCCCCeEEEEecC
Q 031448 64 GRLGPGDIVFVRSP 77 (159)
Q Consensus 64 ~~~~~GDiVvf~~p 77 (159)
-+.+.||++.|...
T Consensus 55 LeCqpgDiley~~d 68 (73)
T COG3655 55 LECQPGDILEYVPD 68 (73)
T ss_pred cCCChhheeEEecC
Confidence 47899999999764
Done!