Query psy6338
Match_columns 135
No_of_seqs 121 out of 1045
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 23:49:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6338.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6338hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0188|consensus 100.0 1.5E-67 3.3E-72 479.4 7.3 133 1-135 91-223 (895)
2 cd00673 AlaRS_core Alanyl-tRNA 100.0 1.1E-65 2.3E-70 418.4 11.2 125 1-135 85-210 (232)
3 PRK01584 alanyl-tRNA synthetas 100.0 3.1E-63 6.7E-68 445.1 10.7 133 1-135 86-220 (594)
4 PLN02900 alanyl-tRNA synthetas 100.0 2.7E-63 6E-68 462.5 9.9 130 1-135 106-235 (936)
5 TIGR00344 alaS alanine--tRNA l 100.0 3.9E-62 8.5E-67 451.1 9.1 125 1-135 83-209 (851)
6 PRK00252 alaS alanyl-tRNA synt 100.0 2.5E-60 5.4E-65 439.5 8.8 126 1-135 88-215 (865)
7 COG0013 AlaS Alanyl-tRNA synth 100.0 6.9E-60 1.5E-64 436.3 9.5 125 1-135 92-219 (879)
8 PF01411 tRNA-synt_2c: tRNA sy 100.0 6.5E-56 1.4E-60 394.0 -5.1 126 1-135 88-216 (552)
9 PRK13902 alaS alanyl-tRNA synt 100.0 4E-37 8.8E-42 286.4 5.0 77 1-135 146-227 (900)
10 TIGR03683 A-tRNA_syn_arch alan 100.0 1.6E-36 3.5E-41 282.4 5.3 77 1-135 143-231 (902)
11 PTZ00450 macrophage migration 91.7 0.19 4.2E-06 36.9 3.1 23 17-40 79-101 (113)
12 KOG1759|consensus 90.0 0.16 3.4E-06 38.3 1.3 24 17-41 78-101 (115)
13 PTZ00397 macrophage migration 86.7 0.64 1.4E-05 33.3 2.6 29 12-41 74-102 (116)
14 PF01422 zf-NF-X1: NF-X1 type 86.5 0.31 6.6E-06 26.4 0.7 9 83-91 12-20 (20)
15 PF01187 MIF: Macrophage migra 81.6 0.44 9.6E-06 34.3 -0.1 21 20-41 80-100 (114)
16 CHL00078 rpl5 ribosomal protei 76.1 2.6 5.6E-05 33.6 2.7 16 49-64 162-177 (181)
17 smart00438 ZnF_NFX Repressor o 74.1 1.5 3.2E-05 25.1 0.6 11 83-93 12-22 (26)
18 cd06008 NF-X1-zinc-finger Pres 61.8 3.4 7.4E-05 26.0 0.5 10 83-92 22-31 (49)
19 PRK00010 rplE 50S ribosomal pr 61.0 8.1 0.00018 30.7 2.7 16 49-64 161-176 (179)
20 PF05634 APO_RNA-bind: APO RNA 59.1 4.5 9.7E-05 33.2 0.9 34 52-96 76-111 (204)
21 PF01361 Tautomerase: Tautomer 55.4 10 0.00023 23.7 2.0 29 12-41 16-44 (60)
22 smart00775 LNS2 LNS2 domain. T 52.3 45 0.00098 25.2 5.4 49 11-74 102-151 (157)
23 PRK01964 4-oxalocrotonate taut 50.6 15 0.00033 23.4 2.2 30 11-41 16-45 (64)
24 TIGR00013 taut 4-oxalocrotonat 45.7 24 0.00053 22.0 2.6 30 11-41 16-45 (63)
25 PLN00111 accumulation of photo 43.1 11 0.00023 33.9 0.8 34 52-96 268-303 (399)
26 PF04428 Choline_kin_N: Cholin 40.6 20 0.00043 23.5 1.6 18 9-26 25-43 (53)
27 PRK02220 4-oxalocrotonate taut 39.8 28 0.0006 21.7 2.2 30 11-41 16-45 (61)
28 cd00491 4Oxalocrotonate_Tautom 38.5 37 0.0008 20.7 2.5 29 12-41 16-44 (58)
29 PF13289 SIR2_2: SIR2-like dom 36.2 1.2E+02 0.0026 21.2 5.2 47 5-63 94-140 (143)
30 PF06491 Disulph_isomer: Disul 35.8 55 0.0012 25.4 3.6 27 32-66 67-95 (136)
31 PF13302 Acetyltransf_3: Acety 35.7 1E+02 0.0022 21.0 4.7 40 13-63 102-141 (142)
32 PF14554 VEGF_C: VEGF heparin- 35.6 12 0.00026 24.8 -0.0 9 84-92 5-13 (55)
33 COG5598 Trimethylamine:corrino 35.4 45 0.00098 31.0 3.5 31 14-62 59-89 (526)
34 PF14813 NADH_B2: NADH dehydro 32.8 14 0.00031 25.6 -0.1 11 43-53 60-70 (71)
35 PF11331 DUF3133: Protein of u 32.7 20 0.00044 22.9 0.6 8 86-93 34-41 (46)
36 cd00768 class_II_aaRS-like_cor 31.9 1.5E+02 0.0033 21.7 5.4 13 84-96 151-163 (211)
37 PRK00745 4-oxalocrotonate taut 31.7 46 0.001 20.7 2.2 29 12-41 17-45 (62)
38 COG4099 Predicted peptidase [G 30.4 46 0.00099 29.7 2.6 28 14-42 251-278 (387)
39 PF13420 Acetyltransf_4: Acety 29.7 26 0.00057 24.7 0.9 31 31-69 110-140 (155)
40 PF13405 EF-hand_6: EF-hand do 26.1 12 0.00027 20.5 -1.1 16 119-134 3-18 (31)
41 COG0094 RplE Ribosomal protein 26.0 72 0.0016 25.8 2.9 19 49-67 161-179 (180)
42 PLN00111 accumulation of photo 25.9 30 0.00066 31.1 0.8 35 51-96 97-133 (399)
43 PF14434 Imm6: Immunity protei 25.1 26 0.00056 26.3 0.2 27 13-41 28-54 (122)
44 KOG0037|consensus 24.2 22 0.00048 29.5 -0.3 22 113-134 115-142 (221)
45 PF10503 Esterase_phd: Esteras 23.5 67 0.0014 26.0 2.3 26 15-41 80-105 (220)
46 PRK10151 ribosomal-protein-L7/ 22.2 1.9E+02 0.0041 21.1 4.3 46 13-69 111-156 (179)
47 KOG1593|consensus 22.1 1.3E+02 0.0028 26.4 3.8 12 13-24 109-120 (349)
48 COG0722 AroG 3-deoxy-D-arabino 21.8 27 0.00059 30.8 -0.3 7 86-93 58-64 (351)
49 PF06925 MGDG_synth: Monogalac 21.8 82 0.0018 23.5 2.4 23 50-72 144-166 (169)
50 PF04371 PAD_porph: Porphyromo 21.7 69 0.0015 27.3 2.1 37 32-75 277-313 (329)
51 PF11735 CAP59_mtransfer: Cryp 21.5 85 0.0018 26.0 2.6 16 29-44 29-44 (241)
52 PF07788 DUF1626: Protein of u 20.8 1.6E+02 0.0035 20.2 3.5 33 21-63 36-69 (70)
53 COG5132 BUD31 Cell cycle contr 20.6 69 0.0015 24.8 1.7 13 50-62 84-96 (146)
54 PRK01271 4-oxalocrotonate taut 20.5 1.5E+02 0.0033 20.3 3.3 29 12-41 18-46 (76)
No 1
>KOG0188|consensus
Probab=100.00 E-value=1.5e-67 Score=479.43 Aligned_cols=133 Identities=55% Similarity=0.985 Sum_probs=130.1
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCccCccCC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKCNFWEM 80 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~dNfW~~ 80 (135)
||||||||||||+|||.|||||||++ ||||++|||||||+||+++||++|.||++||+++|||++||++++.+||||+|
T Consensus 91 MlGNWSFGdYfK~Eac~~AwelLt~v-ygi~~dRLYVtYF~Gde~~Gl~~D~E~r~iW~~~Gvp~srILp~~~kDNFWEM 169 (895)
T KOG0188|consen 91 MLGNWSFGDYFKEEACAWAWELLTFV-YGIPTDRLYVTYFGGDEKLGLEPDLECREIWNELGVPDSRILPFGMKDNFWEM 169 (895)
T ss_pred hcCCCCcchHHHHHHHHHHHHHHHHh-hcCCCceEEEEEecCccccCCCCCcHHHHHHHHcCCChhhccCCccccchhhh
Confidence 99999999999999999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCceeEEeecCCCCCcccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 81 GSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 81 G~~GPCGPcSEI~yd~~~~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
|+||||||||||||||.++ +.++.++|.|++..+||||||||||||++||+|.|
T Consensus 170 GdtGPCGPCtEIHyDriG~-r~a~~LVN~ddp~v~EiWNlVFiq~NRe~dGsL~p 223 (895)
T KOG0188|consen 170 GDTGPCGPCTEIHYDRIGG-RDAVKLVNHDDPDVLEIWNIVFIQYNREADGSLKP 223 (895)
T ss_pred cCCCCCCcchhhhhhhhcC-cchHHHhcCCCcCceeeeeeeeeeeccccCCcccc
Confidence 9999999999999999877 77788999999999999999999999999999986
No 2
>cd00673 AlaRS_core Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its predicted structure and the presence of three characteristic sequence motifs.
Probab=100.00 E-value=1.1e-65 Score=418.36 Aligned_cols=125 Identities=46% Similarity=0.825 Sum_probs=116.5
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHh-cCCCCCCeeecCCccCccC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLE-LGVPRDHIKKEGMKCNFWE 79 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~-~gv~~~rI~~~~~~dNfW~ 79 (135)
||||||||||||+|||+|||||||++ ||||++|||||||. .|+||++||.+ +|||++||++++.+||||+
T Consensus 85 MLGNfSFgdYFK~eaI~~awe~LT~~-l~l~~~rl~vTv~~--------~dde~~~~w~~~~g~~~~~i~~~~~~dNfW~ 155 (232)
T cd00673 85 MLGNFSFGDYFKEEAIAFAWELLTEV-LGLPKDRLYVSVFE--------GDDEEEAIWWWKIGLPGIRIERIGFKDNFWE 155 (232)
T ss_pred hhcccchhhhhHHHHHHHHHHHHHhh-cCCCccceEEEEeC--------CCHHHHHHHHHhhCCCHHHeeeCCccCCCCC
Confidence 99999999999999999999999999 99999999999997 48999999986 7999999999999999999
Q ss_pred CCCCCCCCCceeEEeecCCCCCcccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 80 MGSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 80 ~G~~GPCGPcSEI~yd~~~~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
||++||||||||||||++++..+ ...++++++|||||||||||||+|+++|+|.|
T Consensus 156 ~G~~GPCGPcsEI~yd~g~~~~~-~~~~~~~~~r~lEIWNlVFmqy~r~~~g~l~p 210 (232)
T cd00673 156 MGGNGPCGPCSEIFYDRGEERDA-ASLPNEDDDRYLEIWNLVFMQYNRDADGTYRP 210 (232)
T ss_pred CCCCcCCCCCEEEEEccCCCcCc-cccccCCCCCEEEEeeeeeeeeeccCCCCCcc
Confidence 99999999999999999866333 34678899999999999999999999999875
No 3
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=3.1e-63 Score=445.12 Aligned_cols=133 Identities=38% Similarity=0.751 Sum_probs=121.0
Q ss_pred CCCccccccccHHHHHHHHHHhhcCC-CCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCccCcc-
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKP-PVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKCNFW- 78 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~-~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~dNfW- 78 (135)
||||||||||||+|||+|||||||++ +|||||+|||||||.||++ +++|+||++||+++|||++||++++.+||||
T Consensus 86 MlGnfSfgdYfK~eai~~awe~lt~~~~l~l~~~rl~vTv~~~~~~--~~~D~Ea~~iW~~~g~~~~rI~~~~~~dNfW~ 163 (594)
T PRK01584 86 MLGNWSLGAYFKEESIKYSFEFLTSPDYLNIPKDKLYVTVFEGDEE--IPRDEETASVWESLGIPKDRIFYLSREHNWWG 163 (594)
T ss_pred hhccccHhhhhHHHHHHHHHHHhccchhcCCCHHHeEEEEeCCCCC--CCCCHHHHHHHHHcCCCHHHeeeCCCCCCccc
Confidence 99999999999999999999999986 4999999999999998885 8999999999999999999999999999999
Q ss_pred CCCCCCCCCCceeEEeecCCCCCcccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 79 EMGSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 79 ~~G~~GPCGPcSEI~yd~~~~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
+||++||||||||||||+|+......+.++++|+|||||||||||||||++||+|.|
T Consensus 164 ~~G~~GPCGPcsEI~~d~g~~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~ 220 (594)
T PRK01584 164 PVGETGPCGPDTEIFVDTGKPKCSVNCRPTCSCGKYFEIWNNVFMQYNKDEDGNYEE 220 (594)
T ss_pred ccCCCcCCCCceEEEEecCCcccccccCCCCCCCceEEEeeeeeeeeeecCCCcccc
Confidence 799999999999999999765211122355688999999999999999999999876
No 4
>PLN02900 alanyl-tRNA synthetase
Probab=100.00 E-value=2.7e-63 Score=462.45 Aligned_cols=130 Identities=52% Similarity=0.955 Sum_probs=121.1
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCccCccCC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKCNFWEM 80 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~dNfW~~ 80 (135)
||||||||||||+|||+|||||||++ |||||+|||||||.+|+.+ |+|+||++||++. ||++||++++.+||||+|
T Consensus 106 MlGnfSfgdYfK~eaI~~awe~lT~~-l~i~~~~l~vTv~~~D~~~--~~d~Ea~~iW~~~-~~~~rI~~~~~~dNfW~~ 181 (936)
T PLN02900 106 MLGNWSFGDYFKKEAIGWAWELLTKV-YGLPADRLYATYFGGDEKQ--APDDEARAIWLDY-LPEERVLPFGCKDNFWEM 181 (936)
T ss_pred hhhccchhhhhHHHHHHHHHHHHHHh-cCCCHHHEEEEEeCCCCCc--CCCHHHHHHHHHh-CCHHHeecCCcccCCccC
Confidence 99999999999999999999999999 9999999999999998874 9999999999999 999999999999999999
Q ss_pred CCCCCCCCceeEEeecCCCCCcccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 81 GSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 81 G~~GPCGPcSEI~yd~~~~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
|+|||||||||||||+|++..++ ..++.+++|||||||||||||+|++||+|+|
T Consensus 182 G~tGpcGPcsEi~yD~g~~~~~~-~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~ 235 (936)
T PLN02900 182 GDTGPCGPCSEIHYDRIGERDAA-DLVNNDDPRFIEIWNLVFIQFNREADGSLKP 235 (936)
T ss_pred CCCcCCCCCeEEEEecCCccCcc-ccCCCCCCCEEEEeeeeeeeeeecCCCceee
Confidence 99999999999999998763332 3366789999999999999999999999875
No 5
>TIGR00344 alaS alanine--tRNA ligase. The model describes alanine--tRNA ligase. This enzyme catalyzes the reaction (tRNAala + L-alanine + ATP = L-alanyl-tRNAala + pyrophosphate + AMP).
Probab=100.00 E-value=3.9e-62 Score=451.08 Aligned_cols=125 Identities=39% Similarity=0.757 Sum_probs=115.4
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCccCccCC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKCNFWEM 80 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~dNfW~~ 80 (135)
||||||||||||+|||+|||||||++ |||||+|||||||. .|+||++||+++|||++||++++.+||||+|
T Consensus 83 MlGnfSFgdYfK~eai~~awe~lT~~-~~i~~~rl~vTv~~--------~D~ea~~iW~~~g~~~~~i~~~~~~dNfW~~ 153 (851)
T TIGR00344 83 MLGNFSFGDYFKEEAIAFAWELLTSV-LGLDKERLYVTVYE--------DDEEAYEIWEKHGIPAERIIRCGDKDNFWDM 153 (851)
T ss_pred hhcccchhhhhHHHHHHHHHHHHhhh-cCCChHHEEEEEcC--------CCHHHHHHHHhcCCCHHHcccCCccCCcCCC
Confidence 99999999999999999999999999 99999999999996 5899999999999999999999999999999
Q ss_pred CCCCCCCCceeEEeecCCCCCc--ccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 81 GSTGPCGYSSEIHYDMKGEPSS--ALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 81 G~~GPCGPcSEI~yd~~~~~~~--~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
|+ ||||||||||||+|+...+ +..+++.+++|||||||||||||+|++||+|+|
T Consensus 154 G~-GpcGPcsEi~yD~g~~~~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~ 209 (851)
T TIGR00344 154 GD-GPCGPCTEIYYDRGEFVGGKPGEPEFFEENDRYVEVWNLVFMQFNRDPDGNYTP 209 (851)
T ss_pred CC-cCCccCeEEEEecCcccCCCCCcccccCCCCcEEEEeeeeeEeeeecCCCceee
Confidence 99 9999999999999765322 234556799999999999999999999999875
No 6
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=2.5e-60 Score=439.46 Aligned_cols=126 Identities=44% Similarity=0.820 Sum_probs=116.2
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHh-cCCCCCCeeecCCccCccC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLE-LGVPRDHIKKEGMKCNFWE 79 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~-~gv~~~rI~~~~~~dNfW~ 79 (135)
||||||||||||+|||+|||||||++ |||||+|||||||. .|+||++||++ +|||++||++++.+||||+
T Consensus 88 MlGn~sfgdYfK~eai~~awe~lt~~-~~i~~~~l~vt~~~--------~D~e~~~iW~~~~g~~~~~i~~~~~~dNfW~ 158 (865)
T PRK00252 88 MLGNFSFGDYFKEEAIEWAWELLTSV-LGLPKEKLYVTVYE--------DDDEAYDIWKKEIGVPPERIIRIGKKDNFWS 158 (865)
T ss_pred HhcccchhhhhHHHHHHHHHHHHHHH-hCCCHHHEEEEEcC--------CCHHHHHHHHhccCCCHHHeecCCccCCccc
Confidence 99999999999999999999999999 99999999999996 59999999995 8999999999999999999
Q ss_pred CCCCCCCCCceeEEeecCCCCC-cccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 80 MGSTGPCGYSSEIHYDMKGEPS-SALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 80 ~G~~GPCGPcSEI~yd~~~~~~-~~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
||+|||||||||||||+|+... .+...++.+++|||||||||||||||+++|+|.|
T Consensus 159 ~G~~GpcGPcsEi~~d~g~~~~~~~~~~~~~~~~~~lEiwNlVF~q~~~~~~g~~~~ 215 (865)
T PRK00252 159 MGDTGPCGPCSEIFYDRGEEYWGGPPGSPEEDGDRYIEIWNLVFMQFNRDEDGNLTP 215 (865)
T ss_pred cCCCcCCCCCeEEEEecCcccCCCCCCCCcCCCCcEEEEeeeeeEeeeecCCCceee
Confidence 9999999999999999975421 1245678899999999999999999999999875
No 7
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.9e-60 Score=436.30 Aligned_cols=125 Identities=42% Similarity=0.821 Sum_probs=116.3
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHh-cCCCCCCeeecCCccCccC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLE-LGVPRDHIKKEGMKCNFWE 79 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~-~gv~~~rI~~~~~~dNfW~ 79 (135)
||||||||||||+|||.|||||||++ |||||+|||||||. .|+||+++|++ +|||++||+|++.+||||+
T Consensus 92 MLGNfSFGdYFKeeAI~~AwEflT~~-lgl~~ekL~vtvy~--------~Ddea~~~W~~~~gip~~rIir~~~~dNfW~ 162 (879)
T COG0013 92 MLGNFSFGDYFKEEAIEFAWEFLTKV-LGLPKEKLYVTVYE--------DDDEAYNEWEKIIGIPPERIIRIGASDNFWE 162 (879)
T ss_pred hhhcCchhHHHHHHHHHHHHHHHHhh-cCCCHHHEEEEEec--------CchHHHHHHHhhcCCCHHHeeecCcCCCCCC
Confidence 99999999999999999999999988 99999999999996 69999999987 7999999999999999999
Q ss_pred CCCCCCCCCceeEEeecCCCCCc-ccccCCCCCCcEEEEeeccccccccC-CCCccCC
Q psy6338 80 MGSTGPCGYSSEIHYDMKGEPSS-ALARVNADRNDLIEIWNIVFISHKRV-SADTIVP 135 (135)
Q Consensus 80 ~G~~GPCGPcSEI~yd~~~~~~~-~~~~~~~~~~r~lEIWNlVFmqy~r~-~dG~l~p 135 (135)
||+ ||||||||||||+|+...+ +...++.+++|||||||||||||||+ .+|+|+|
T Consensus 163 ~G~-GPcGPcsEI~yD~G~~~~~~~~~~~~~d~dR~lEiwNLVFmQfnr~~~~g~~~~ 219 (879)
T COG0013 163 MGD-GPCGPCSEIFYDRGEEIGGGPPGSPDEDGDRYLEIWNLVFMQYNRDPGDGNYTP 219 (879)
T ss_pred CCC-cCCCCceEEEEcCCcccCCCCCCCcCCCCCceEEEeeeeehhhccCCCCCCccc
Confidence 999 9999999999999866432 24678899999999999999999999 6888875
No 8
>PF01411 tRNA-synt_2c: tRNA synthetases class II (A); InterPro: IPR018164 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Alanyl-tRNA synthetase (6.1.1.7 from EC) is an alpha4 tetramer that belongs to class IIc. ; GO: 0000166 nucleotide binding, 0004813 alanine-tRNA ligase activity, 0005524 ATP binding, 0006419 alanyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3HY1_A 3HXZ_C 3HXY_A 3HXU_A 3HY0_B 3HXV_A 3HXX_A 3HXW_A 2E1B_A 2ZZG_B ....
Probab=100.00 E-value=6.5e-56 Score=393.96 Aligned_cols=126 Identities=45% Similarity=0.815 Sum_probs=112.6
Q ss_pred CCCccccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhc-CCCCCCeeecCCccCccC
Q psy6338 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLEL-GVPRDHIKKEGMKCNFWE 79 (135)
Q Consensus 1 MLGNfSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~-gv~~~rI~~~~~~dNfW~ 79 (135)
||||||||||||+|||+|||||||++ |||||+|||||||.+ |+||++||+++ |+|++||++++.++|||+
T Consensus 88 MlGn~sfgdYfK~eai~~awe~lt~~-l~i~~~~l~vt~~~~--------d~ea~~~w~~~~g~~~~~i~~~~~~~nfw~ 158 (552)
T PF01411_consen 88 MLGNFSFGDYFKEEAIEYAWEFLTEV-LGIPPDRLYVTVFEW--------DGEAGEIWEKIVGGPEERILVFGKKDNFWE 158 (552)
T ss_dssp EEEEEEECSS-HHHHHHHHHHHHHCT-TT--GGGEEEEEECC--------ECCCCCCCCECCTTECCCEEEE-CCEEEEE
T ss_pred hccccccccccHHHHHHHHHHHHHhh-cCCChHhEEEEEeCC--------chhHHHHHHHhcCCCHHHeEecCCCCceEE
Confidence 99999999999999999999999999 999999999999985 66999999997 699999999999999999
Q ss_pred CCCCCCCCCceeEEeecCCCCCc--ccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 80 MGSTGPCGYSSEIHYDMKGEPSS--ALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 80 ~G~~GPCGPcSEI~yd~~~~~~~--~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
||++||||||||||||+|.+..+ +.+.++++++||+||||+|||||+|++||+|.|
T Consensus 159 ~g~~gpcgpcseI~~d~G~e~~~~~~~~~~~~~~~~~~eiwn~vf~q~~~~~~g~~~~ 216 (552)
T PF01411_consen 159 MGDTGPCGPCSEIFYDRGEERGCWDSQGTPTCDDDRFLEIWNLVFMQYNRDEDGSLEP 216 (552)
T ss_dssp SSTSEEEEEEEEEEEEEECCCHHHHHHSTSSHHHHHECCCCCCCCCEEEETTTSHCCC
T ss_pred CCCCCCCCCCEEEEECCCcccCccccccccccccccHHHHHHHHHHHhcccccccccc
Confidence 99999999999999999866332 245678899999999999999999999999875
No 9
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=4e-37 Score=286.42 Aligned_cols=77 Identities=29% Similarity=0.531 Sum_probs=70.3
Q ss_pred CCCccccc-----cccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCcc
Q psy6338 1 MLGNWSFN-----DYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKC 75 (135)
Q Consensus 1 MLGNfSfG-----dYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~d 75 (135)
|||||||| ||||+|||+|||||||++ |||||+| |++ +|
T Consensus 146 MlGn~sFg~~~~~~YfK~eaI~~a~e~lt~~-lgi~~~~---------------------------------I~~---~e 188 (900)
T PRK13902 146 MMAHHAFNYPDKEVYWKDETVEYCFEFFTKE-LGIDPEE---------------------------------ITF---KE 188 (900)
T ss_pred hccceeeCCCCcccccHHHHHHHHHHHHHhh-cCCCHHH---------------------------------eee---cc
Confidence 99999999 999999999999999999 9999864 444 78
Q ss_pred CccCCCCCCCCCCceeEEeecCCCCCcccccCCCCCCcEEEEeeccccccccCCCCccCC
Q psy6338 76 NFWEMGSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVSADTIVP 135 (135)
Q Consensus 76 NfW~~G~~GPCGPcSEI~yd~~~~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~dG~l~p 135 (135)
|||+|| ||||||||||| +| |||||||||||+|+ +|+|.|
T Consensus 189 nfW~~G--GpcGPcsEi~~-~g-----------------lEiwnlVFmqy~~~-~g~~~~ 227 (900)
T PRK13902 189 SWWEGG--GNAGPCFEVLV-RG-----------------LELATLVFMQYKKD-GNRYVE 227 (900)
T ss_pred cccCCC--CCCCCceeeee-CC-----------------EEeeeeeeeEEEcC-CCeeee
Confidence 999999 99999999999 31 99999999999999 888765
No 10
>TIGR03683 A-tRNA_syn_arch alanyl-tRNA synthetase. This family of alanyl-tRNA synthetases is limited to the archaea, and is a subset of those sequences identified by the model pfam07973 covering the second additional domain (SAD) of alanyl and threonyl tRNA synthetases.
Probab=100.00 E-value=1.6e-36 Score=282.44 Aligned_cols=77 Identities=25% Similarity=0.434 Sum_probs=69.5
Q ss_pred CCCccccc-----cccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCcc
Q psy6338 1 MLGNWSFN-----DYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKC 75 (135)
Q Consensus 1 MLGNfSfG-----dYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~d 75 (135)
|||||||| ||||+|||+|||||| ++ ||||++| |++ +|
T Consensus 143 MlGn~sFg~~~~~dYfK~EaI~~a~e~l-~~-lgi~~~~---------------------------------i~~---~e 184 (902)
T TIGR03683 143 MMAHHAFNYPDKEIYWKDETVEYCFEFL-EE-LGIDPEE---------------------------------ITY---KE 184 (902)
T ss_pred hccceeeCCCCcccCcHHHHHHHHHHHH-HH-cCCCHHH---------------------------------eee---cC
Confidence 99999999 999999999999999 88 8887775 444 78
Q ss_pred CccCCCCCCCCCCceeEEeecCCCCCcccccCCCCCCcEEEEeeccccccccCC-------CCccCC
Q psy6338 76 NFWEMGSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVS-------ADTIVP 135 (135)
Q Consensus 76 NfW~~G~~GPCGPcSEI~yd~~~~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~-------dG~l~p 135 (135)
|||+|| ||||||||||| +| |||||||||||+|++ +|+|.|
T Consensus 185 nfW~~G--GpcGPcsEi~~-~g-----------------lEiwnlVFmq~~~~~~~~~~~~~g~~~~ 231 (902)
T TIGR03683 185 SPWEGG--GNAGPCFEVIV-GG-----------------LELATLVFMQYEEDKEGEIEIKGGRYSE 231 (902)
T ss_pred CccCCC--CCCCCceeeee-Cc-----------------EeeeeeeeeeeccccccccccCCCeeee
Confidence 999999 99999999999 31 999999999999999 787765
No 11
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=91.67 E-value=0.19 Score=36.92 Aligned_cols=23 Identities=26% Similarity=0.572 Sum_probs=20.0
Q ss_pred HHHHHhhcCCCCCCCCCceEEEEe
Q psy6338 17 RMALEFLTKPPVSLPLDRLYFTYF 40 (135)
Q Consensus 17 ~~awefLT~~~lgl~~~rL~vTv~ 40 (135)
+---++|+++ ||||++|+||+++
T Consensus 79 ~~i~~~l~~~-LgIp~dRiYI~f~ 101 (113)
T PTZ00450 79 PRITAAITKE-CGIPAERIYVFYY 101 (113)
T ss_pred HHHHHHHHHH-cCCCcccEEEEEE
Confidence 4456788888 9999999999998
No 12
>KOG1759|consensus
Probab=90.02 E-value=0.16 Score=38.30 Aligned_cols=24 Identities=33% Similarity=0.595 Sum_probs=20.6
Q ss_pred HHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 17 RMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 17 ~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
.---|+|.++ |+||++|+|+++|.
T Consensus 78 a~l~~il~~~-L~l~~~rv~I~f~d 101 (115)
T KOG1759|consen 78 AALTEILEKE-LSLDPDRVYIKFYD 101 (115)
T ss_pred HHHHHHHHHH-hCCCCCeEEEEEec
Confidence 3446899988 99999999999993
No 13
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=86.68 E-value=0.64 Score=33.34 Aligned_cols=29 Identities=10% Similarity=0.277 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 12 KRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 12 K~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
|++-.+---++|.+. ||+||+|+||.++.
T Consensus 74 k~~l~~~i~~~l~~~-lgi~~~rv~I~f~~ 102 (116)
T PTZ00397 74 NSSIAAAITKILASH-LKVKSERVYIEFKD 102 (116)
T ss_pred HHHHHHHHHHHHHHH-hCcCcccEEEEEEE
Confidence 445555666788888 99999999999984
No 14
>PF01422 zf-NF-X1: NF-X1 type zinc finger; InterPro: IPR000967 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a domain presumed to be a zinc binding domain. The following pattern describes the zinc finger: C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C where X can be any amino acid, and numbers in brackets indicate the number of residues. The two position can be either His or Cys. This domain is found in the human transcriptional repressor NK-X1, a repressor of HLA-DRA transcription; the Drosophila shuttle craft protein, which plays an essential role during the late stages of embryonic neurogenesis; and a yeast hypothetical protein YNL023C. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=86.54 E-value=0.31 Score=26.37 Aligned_cols=9 Identities=33% Similarity=0.862 Sum_probs=7.7
Q ss_pred CCCCCCcee
Q psy6338 83 TGPCGYSSE 91 (135)
Q Consensus 83 ~GPCGPcSE 91 (135)
.|||.||++
T Consensus 12 ~G~C~pC~~ 20 (20)
T PF01422_consen 12 PGPCPPCPQ 20 (20)
T ss_pred CCcCCCCCC
Confidence 599999984
No 15
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=81.55 E-value=0.44 Score=34.31 Aligned_cols=21 Identities=33% Similarity=0.806 Sum_probs=16.3
Q ss_pred HHhhcCCCCCCCCCceEEEEec
Q psy6338 20 LEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 20 wefLT~~~lgl~~~rL~vTv~~ 41 (135)
-+||.++ |||+++|+||.++.
T Consensus 80 ~~~l~~~-LgIp~~Riyi~f~d 100 (114)
T PF01187_consen 80 TEFLEEE-LGIPPDRIYINFHD 100 (114)
T ss_dssp HHHHHHH-HT--GGGEEEEEEE
T ss_pred HHHHHHH-hCCCcCceEEEEEE
Confidence 4678777 99999999999984
No 16
>CHL00078 rpl5 ribosomal protein L5
Probab=76.09 E-value=2.6 Score=33.62 Aligned_cols=16 Identities=44% Similarity=0.727 Sum_probs=14.5
Q ss_pred CCCHHHHHHHHhcCCC
Q psy6338 49 PCDEETLDIWLELGVP 64 (135)
Q Consensus 49 ~~D~Ea~~iW~~~gv~ 64 (135)
..|+||+.+|..+|+|
T Consensus 162 ~t~~ea~~Ll~~~g~P 177 (181)
T CHL00078 162 KTDQEGLALLKELGMP 177 (181)
T ss_pred CCHHHHHHHHHHcCCC
Confidence 4699999999999988
No 17
>smart00438 ZnF_NFX Repressor of transcription.
Probab=74.07 E-value=1.5 Score=25.09 Aligned_cols=11 Identities=27% Similarity=0.637 Sum_probs=8.7
Q ss_pred CCCCCCceeEE
Q psy6338 83 TGPCGYSSEIH 93 (135)
Q Consensus 83 ~GPCGPcSEI~ 93 (135)
.|||+||.+..
T Consensus 12 ~G~C~pC~~~~ 22 (26)
T smart00438 12 PGPCPPCKQXX 22 (26)
T ss_pred CCcCcCccccc
Confidence 49999999653
No 18
>cd06008 NF-X1-zinc-finger Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.
Probab=61.78 E-value=3.4 Score=26.03 Aligned_cols=10 Identities=40% Similarity=0.813 Sum_probs=8.8
Q ss_pred CCCCCCceeE
Q psy6338 83 TGPCGYSSEI 92 (135)
Q Consensus 83 ~GPCGPcSEI 92 (135)
+|||+||+++
T Consensus 22 ~G~C~pC~~~ 31 (49)
T cd06008 22 EGPCPPCPET 31 (49)
T ss_pred CCcCcCcCCc
Confidence 6999999976
No 19
>PRK00010 rplE 50S ribosomal protein L5; Validated
Probab=61.05 E-value=8.1 Score=30.71 Aligned_cols=16 Identities=31% Similarity=0.526 Sum_probs=14.6
Q ss_pred CCCHHHHHHHHhcCCC
Q psy6338 49 PCDEETLDIWLELGVP 64 (135)
Q Consensus 49 ~~D~Ea~~iW~~~gv~ 64 (135)
..|+||+.+|..+|+|
T Consensus 161 ~t~~ea~~LLs~~g~P 176 (179)
T PRK00010 161 KTDEEARALLKAFGFP 176 (179)
T ss_pred CCHHHHHHHHHHcCCC
Confidence 4799999999999988
No 20
>PF05634 APO_RNA-bind: APO RNA-binding; InterPro: IPR008512 This family consists of plant APO (accumulation of photosystem 1) proteins.
Probab=59.10 E-value=4.5 Score=33.25 Aligned_cols=34 Identities=35% Similarity=0.683 Sum_probs=22.8
Q ss_pred HHHHHHHHhc--CCCCCCeeecCCccCccCCCCCCCCCCceeEEeec
Q psy6338 52 EETLDIWLEL--GVPRDHIKKEGMKCNFWEMGSTGPCGYSSEIHYDM 96 (135)
Q Consensus 52 ~Ea~~iW~~~--gv~~~rI~~~~~~dNfW~~G~~GPCGPcSEI~yd~ 96 (135)
.|+++.|..+ |+. +++. +-++=-||.|||||+-.
T Consensus 76 ~ev~~A~~~L~~Gv~--kLm~---------v~pV~~C~~C~EVHVG~ 111 (204)
T PF05634_consen 76 YEVLEAWETLISGVK--KLMK---------VYPVKACGYCPEVHVGP 111 (204)
T ss_pred HHHHHHHHHHHHHHH--HHhe---------eeeeeecCCCCCeEECC
Confidence 3788888874 433 3432 33455699999999864
No 21
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=55.35 E-value=10 Score=23.71 Aligned_cols=29 Identities=14% Similarity=0.259 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 12 KRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 12 K~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
|++-++-.=+.+.+. +|.|+++++|.+.+
T Consensus 16 K~~l~~~it~~~~~~-lg~~~~~i~V~i~E 44 (60)
T PF01361_consen 16 KRELAEAITDAVVEV-LGIPPERISVVIEE 44 (60)
T ss_dssp HHHHHHHHHHHHHHH-HTS-GGGEEEEEEE
T ss_pred HHHHHHHHHHHHHHH-hCcCCCeEEEEEEE
Confidence 444455555667777 99999999999985
No 22
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=52.30 E-value=45 Score=25.17 Aligned_cols=49 Identities=18% Similarity=0.285 Sum_probs=29.1
Q ss_pred cHHHHHHHHHHhhcCCCCCCCCCce-EEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCc
Q psy6338 11 YKRDACRMALEFLTKPPVSLPLDRL-YFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMK 74 (135)
Q Consensus 11 fK~eAi~~awefLT~~~lgl~~~rL-~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~ 74 (135)
||.+.++.--+++- ++++ ++-.|+ +. ..| .++|++.|||++||+.++.+
T Consensus 102 ~K~~~l~~i~~~~~-------~~~~~f~~~~g-n~----~~D---~~~y~~~gi~~~~i~~i~~~ 151 (157)
T smart00775 102 FKIACLRDIKSLFP-------PQGNPFYAGFG-NR----ITD---VISYSAVGIPPSRIFTINPK 151 (157)
T ss_pred HHHHHHHHHHHhcC-------CCCCCEEEEeC-CC----chh---HHHHHHcCCChhhEEEECCC
Confidence 56666655444432 2333 334563 22 235 45677899999999987654
No 23
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=50.56 E-value=15 Score=23.39 Aligned_cols=30 Identities=13% Similarity=0.187 Sum_probs=23.6
Q ss_pred cHHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 11 YKRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 11 fK~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
.|+.-++-.-+.|.+. +|+|++.++|.+-.
T Consensus 16 qk~~l~~~it~~l~~~-lg~p~~~v~V~i~e 45 (64)
T PRK01964 16 KIKNLIREVTEAISAT-LDVPKERVRVIVNE 45 (64)
T ss_pred HHHHHHHHHHHHHHHH-hCcChhhEEEEEEE
Confidence 3556666666777778 99999999999974
No 24
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=45.70 E-value=24 Score=22.02 Aligned_cols=30 Identities=13% Similarity=0.094 Sum_probs=23.8
Q ss_pred cHHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 11 YKRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 11 fK~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
.|+.-++-.-+.|.+. +|.+++.++|.+..
T Consensus 16 qK~~l~~~it~~l~~~-lg~~~~~v~V~i~e 45 (63)
T TIGR00013 16 QKRQLIEGVTEAMAET-LGANLESIVVIIDE 45 (63)
T ss_pred HHHHHHHHHHHHHHHH-hCCCcccEEEEEEE
Confidence 3556666667777778 99999999999974
No 25
>PLN00111 accumulation of photosystem one; Provisional
Probab=43.07 E-value=11 Score=33.86 Aligned_cols=34 Identities=35% Similarity=0.705 Sum_probs=23.4
Q ss_pred HHHHHHHHhc--CCCCCCeeecCCccCccCCCCCCCCCCceeEEeec
Q psy6338 52 EETLDIWLEL--GVPRDHIKKEGMKCNFWEMGSTGPCGYSSEIHYDM 96 (135)
Q Consensus 52 ~Ea~~iW~~~--gv~~~rI~~~~~~dNfW~~G~~GPCGPcSEI~yd~ 96 (135)
+|+.+.|.++ |+. +++. +-++=-||.|||+|+-.
T Consensus 268 ~etl~Aw~~~~~Gv~--~Lm~---------~y~V~~C~yC~EVhVGp 303 (399)
T PLN00111 268 EETLEAWEKVRSGVK--KLMR---------KYPVKVCGYCPEVHVGP 303 (399)
T ss_pred HHHHHHHHHHHHHHH--HHhh---------hccccccCCCCceeECC
Confidence 6889999975 543 3433 22345699999999853
No 26
>PF04428 Choline_kin_N: Choline kinase N terminus; InterPro: IPR007521 This domain is found N-terminal to choline/ethanolamine kinase regions (IPR002573 from INTERPRO) in some plant and fungal choline kinase enzymes (2.7.1.32 from EC). This region is only found in some members of the choline kinase family, and is therefore unlikely to contribute to catalysis.; GO: 0016773 phosphotransferase activity, alcohol group as acceptor
Probab=40.55 E-value=20 Score=23.51 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=14.5
Q ss_pred cc-cHHHHHHHHHHhhcCC
Q psy6338 9 DY-YKRDACRMALEFLTKP 26 (135)
Q Consensus 9 dY-fK~eAi~~awefLT~~ 26 (135)
+| ||+|+++.+..|=.+.
T Consensus 25 ~y~fk~di~~l~htL~i~~ 43 (53)
T PF04428_consen 25 DYRFKQDILRLIHTLKIKK 43 (53)
T ss_pred hhccHHHHHHHHHHhcccc
Confidence 78 9999999988765444
No 27
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=39.83 E-value=28 Score=21.66 Aligned_cols=30 Identities=7% Similarity=0.042 Sum_probs=22.8
Q ss_pred cHHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 11 YKRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 11 fK~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
.|++-++-.-+.|.+. +|+|++.++|.+-.
T Consensus 16 qk~~l~~~it~~l~~~-~~~p~~~v~V~i~e 45 (61)
T PRK02220 16 QLKALVKDVTAAVSKN-TGAPAEHIHVIINE 45 (61)
T ss_pred HHHHHHHHHHHHHHHH-hCcChhhEEEEEEE
Confidence 3555556666667777 99999999999974
No 28
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=38.51 E-value=37 Score=20.69 Aligned_cols=29 Identities=14% Similarity=0.111 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 12 KRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 12 K~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
|++-.+-.-+.|.+. +|.+++.++|.+..
T Consensus 16 k~~l~~~i~~~l~~~-~g~~~~~v~V~i~e 44 (58)
T cd00491 16 KRELIERVTEAVSEI-LGAPEATIVVIIDE 44 (58)
T ss_pred HHHHHHHHHHHHHHH-hCcCcccEEEEEEE
Confidence 444455556667777 99999999999974
No 29
>PF13289 SIR2_2: SIR2-like domain
Probab=36.19 E-value=1.2e+02 Score=21.15 Aligned_cols=47 Identities=23% Similarity=0.246 Sum_probs=27.7
Q ss_pred cccccccHHHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCC
Q psy6338 5 WSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGV 63 (135)
Q Consensus 5 fSfGdYfK~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv 63 (135)
|||.|- -|....+.+.+. .+-.+.++|+.+... .++...+.|++.||
T Consensus 94 ys~~D~----~i~~~l~~~~~~-~~~~~~~~~~v~~~~-------~~~~~~~~~~~~~i 140 (143)
T PF13289_consen 94 YSFNDP----DIRQLLRSALEN-SGKSRPRHYIVIPDP-------DDENEREFLEKYGI 140 (143)
T ss_pred ECCCCH----HHHHHHHHHHHh-ccCCCccEEEEEcCC-------chHHHHHHHHHcCC
Confidence 455554 344444333333 333456788888753 24778889988876
No 30
>PF06491 Disulph_isomer: Disulphide isomerase; InterPro: IPR009474 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FHK_F.
Probab=35.78 E-value=55 Score=25.43 Aligned_cols=27 Identities=30% Similarity=0.309 Sum_probs=18.2
Q ss_pred CCceEEEEecCCCCCCCCCCHHHHHHHHhc--CCCCC
Q psy6338 32 LDRLYFTYFGGSDQYGLPCDEETLDIWLEL--GVPRD 66 (135)
Q Consensus 32 ~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~--gv~~~ 66 (135)
|++ .||||.| .|.||-+-=++. |.|++
T Consensus 67 PD~-lvTVFAG-------qDkEAt~~aR~yf~~~pPS 95 (136)
T PF06491_consen 67 PDH-LVTVFAG-------QDKEATAKAREYFEPYPPS 95 (136)
T ss_dssp -SE-EEEEETT-------TSHHHHHHHHHTSTTS---
T ss_pred CCc-eEEeccC-------CCHHHHHHHHHhcCCCCCC
Confidence 676 5899998 799998887763 55544
No 31
>PF13302 Acetyltransf_3: Acetyltransferase (GNAT) domain; PDB: 3TTH_C 3JUW_A 2ZXV_A 2Z0Z_A 2VI7_B 3EG7_F 1YRE_C 3IGR_B 3FBU_A 2FCK_A ....
Probab=35.71 E-value=1e+02 Score=20.98 Aligned_cols=40 Identities=20% Similarity=0.357 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCC
Q psy6338 13 RDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGV 63 (135)
Q Consensus 13 ~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv 63 (135)
.||+..+-+++.+. +| ..+|++++.. ...-|.++-++.|.
T Consensus 102 ~~~~~~~~~~~~~~-~~--~~~i~a~~~~--------~N~~s~~~~~k~GF 141 (142)
T PF13302_consen 102 TEALKLLLDWAFEE-LG--LHRIIATVMA--------DNEASRRLLEKLGF 141 (142)
T ss_dssp HHHHHHHHHHHHHT-ST--SSEEEEEEET--------T-HHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHhc-CC--cEEEEEEECc--------CCHHHHHHHHHcCC
Confidence 57888888887655 55 6889999996 57788889888874
No 32
>PF14554 VEGF_C: VEGF heparin-binding domain; PDB: 2VGH_A 4DEQ_A 1VGH_A 1KMX_A.
Probab=35.62 E-value=12 Score=24.80 Aligned_cols=9 Identities=33% Similarity=0.386 Sum_probs=3.3
Q ss_pred CCCCCceeE
Q psy6338 84 GPCGYSSEI 92 (135)
Q Consensus 84 GPCGPcSEI 92 (135)
-+|.||||-
T Consensus 5 ~~C~PCSEr 13 (55)
T PF14554_consen 5 NHCEPCSER 13 (55)
T ss_dssp -----SSSS
T ss_pred ccccccHhH
Confidence 579999994
No 33
>COG5598 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]
Probab=35.43 E-value=45 Score=31.01 Aligned_cols=31 Identities=29% Similarity=0.526 Sum_probs=22.3
Q ss_pred HHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcC
Q psy6338 14 DACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELG 62 (135)
Q Consensus 14 eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~g 62 (135)
|+|..|=--+.++ +||.-. |+||++||++.|
T Consensus 59 e~Ih~aal~vLee-iGi~~~-----------------d~~a~~l~~~aG 89 (526)
T COG5598 59 EAIHEAALRVLEE-VGIEVR-----------------DDEALELWKEAG 89 (526)
T ss_pred HHHHHHHHHHHHh-cCcccC-----------------CHHHHHHHHHhC
Confidence 5666655444555 787654 779999999988
No 34
>PF14813 NADH_B2: NADH dehydrogenase 1 beta subcomplex subunit 2
Probab=32.82 E-value=14 Score=25.60 Aligned_cols=11 Identities=36% Similarity=0.902 Sum_probs=6.9
Q ss_pred CCCCCCCCCHH
Q psy6338 43 SDQYGLPCDEE 53 (135)
Q Consensus 43 d~~~g~~~D~E 53 (135)
|+++|+|+|+|
T Consensus 60 DeELGIppdd~ 70 (71)
T PF14813_consen 60 DEELGIPPDDE 70 (71)
T ss_pred hhhcCCCCCCC
Confidence 56666666654
No 35
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=32.68 E-value=20 Score=22.86 Aligned_cols=8 Identities=50% Similarity=0.958 Sum_probs=7.1
Q ss_pred CCCceeEE
Q psy6338 86 CGYSSEIH 93 (135)
Q Consensus 86 CGPcSEI~ 93 (135)
||-|||+.
T Consensus 34 CGaCs~vl 41 (46)
T PF11331_consen 34 CGACSEVL 41 (46)
T ss_pred CCCCceeE
Confidence 99999985
No 36
>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.
Probab=31.89 E-value=1.5e+02 Score=21.73 Aligned_cols=13 Identities=38% Similarity=0.434 Sum_probs=10.8
Q ss_pred CCCCCceeEEeec
Q psy6338 84 GPCGYSSEIHYDM 96 (135)
Q Consensus 84 GPCGPcSEI~yd~ 96 (135)
+.+|+|.+|+++.
T Consensus 151 ~~~g~~~~i~~~~ 163 (211)
T cd00768 151 GGAGPGFEIEVDH 163 (211)
T ss_pred ccCCceEEEEEEc
Confidence 4788999999974
No 37
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=31.71 E-value=46 Score=20.70 Aligned_cols=29 Identities=10% Similarity=0.107 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 12 KRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 12 K~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
|++-++-.-+.|.+. +|+|++.++|.+-.
T Consensus 17 k~~l~~~it~~l~~~-~~~p~~~v~V~i~e 45 (62)
T PRK00745 17 KRKLVEEITRVTVET-LGCPPESVDIIITD 45 (62)
T ss_pred HHHHHHHHHHHHHHH-cCCChhHEEEEEEE
Confidence 445555556667777 99999999998874
No 38
>COG4099 Predicted peptidase [General function prediction only]
Probab=30.39 E-value=46 Score=29.65 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=24.1
Q ss_pred HHHHHHHHhhcCCCCCCCCCceEEEEecC
Q psy6338 14 DACRMALEFLTKPPVSLPLDRLYFTYFGG 42 (135)
Q Consensus 14 eAi~~awefLT~~~lgl~~~rL~vTv~~g 42 (135)
+.|+.+-|-|.+. ++||+.|||||=+.+
T Consensus 251 ~~idli~~vlas~-ynID~sRIYviGlSr 278 (387)
T COG4099 251 EKIDLILEVLAST-YNIDRSRIYVIGLSR 278 (387)
T ss_pred HHHHHHHHHHhhc-cCcccceEEEEeecC
Confidence 5688888778888 999999999999865
No 39
>PF13420 Acetyltransf_4: Acetyltransferase (GNAT) domain; PDB: 3DR8_A 3DR6_A 2AE6_B 2JLM_C 2J8R_A 1YVO_B 2J8M_A 2J8N_A 2BL1_A 3IWG_A ....
Probab=29.68 E-value=26 Score=24.67 Aligned_cols=31 Identities=16% Similarity=0.507 Sum_probs=23.4
Q ss_pred CCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCee
Q psy6338 31 PLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIK 69 (135)
Q Consensus 31 ~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~ 69 (135)
.-.+|++.|+. ....|.++|+++|.....++
T Consensus 110 ~~~~i~~~v~~--------~N~~~i~~~~~~GF~~~g~~ 140 (155)
T PF13420_consen 110 GIHKIYLEVFS--------SNEKAINFYKKLGFEEEGEL 140 (155)
T ss_dssp T-CEEEEEEET--------T-HHHHHHHHHTTEEEEEEE
T ss_pred CeEEEEEEEec--------CCHHHHHHHHhCCCEEEEEE
Confidence 35789999996 57899999999997655444
No 40
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=26.09 E-value=12 Score=20.54 Aligned_cols=16 Identities=13% Similarity=0.013 Sum_probs=11.9
Q ss_pred eccccccccCCCCccC
Q psy6338 119 NIVFISHKRVSADTIV 134 (135)
Q Consensus 119 NlVFmqy~r~~dG~l~ 134 (135)
.-+|.+|+++.||.+.
T Consensus 3 ~~~F~~~D~d~dG~I~ 18 (31)
T PF13405_consen 3 REAFKMFDKDGDGFID 18 (31)
T ss_dssp HHHHHHH-TTSSSEEE
T ss_pred HHHHHHHCCCCCCcCc
Confidence 4578999999999764
No 41
>COG0094 RplE Ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=26.02 E-value=72 Score=25.83 Aligned_cols=19 Identities=21% Similarity=0.323 Sum_probs=15.3
Q ss_pred CCCHHHHHHHHhcCCCCCC
Q psy6338 49 PCDEETLDIWLELGVPRDH 67 (135)
Q Consensus 49 ~~D~Ea~~iW~~~gv~~~r 67 (135)
+.|.||+.+-...|+|-.+
T Consensus 161 ~~d~e~R~ll~~~~~Pf~~ 179 (180)
T COG0094 161 KGDVEARALLSAFGIPFRK 179 (180)
T ss_pred CChHHHHHHHHhcCCCCCC
Confidence 4599999998889888543
No 42
>PLN00111 accumulation of photosystem one; Provisional
Probab=25.87 E-value=30 Score=31.07 Aligned_cols=35 Identities=26% Similarity=0.396 Sum_probs=24.0
Q ss_pred CHHHHHHHHhc--CCCCCCeeecCCccCccCCCCCCCCCCceeEEeec
Q psy6338 51 DEETLDIWLEL--GVPRDHIKKEGMKCNFWEMGSTGPCGYSSEIHYDM 96 (135)
Q Consensus 51 D~Ea~~iW~~~--gv~~~rI~~~~~~dNfW~~G~~GPCGPcSEI~yd~ 96 (135)
-+|.++-|..+ |+. ++++ ..++=-||.|+|||+-.
T Consensus 97 A~ev~~A~~~L~~Gv~--kLm~---------v~pV~~C~~C~EVHVG~ 133 (399)
T PLN00111 97 AHEVYKARKLLISGVS--KLLK---------VVPVHACKFCSEVHVGK 133 (399)
T ss_pred HHHHHHHHHHHHHHHH--Hhhe---------EEeeeecCcCCceeECC
Confidence 56888899875 443 3443 33445699999999864
No 43
>PF14434 Imm6: Immunity protein Imm6
Probab=25.05 E-value=26 Score=26.25 Aligned_cols=27 Identities=22% Similarity=0.255 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 13 RDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 13 ~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
++|++.+|++|... +++++-||-.+-.
T Consensus 28 ~~aL~~cw~wle~~--~~~~D~LY~lldn 54 (122)
T PF14434_consen 28 REALDACWKWLEGK--EVTGDELYSLLDN 54 (122)
T ss_pred HHHHHHHHHHHHcC--CCCHHHHHHHHhC
Confidence 89999999999875 8999999887764
No 44
>KOG0037|consensus
Probab=24.22 E-value=22 Score=29.54 Aligned_cols=22 Identities=27% Similarity=0.483 Sum_probs=18.0
Q ss_pred cEEEEee------ccccccccCCCCccC
Q psy6338 113 DLIEIWN------IVFISHKRVSADTIV 134 (135)
Q Consensus 113 r~lEIWN------lVFmqy~r~~dG~l~ 134 (135)
.|.++|| .||+||+||.+|++.
T Consensus 115 EF~~Lw~~i~~Wr~vF~~~D~D~SG~I~ 142 (221)
T KOG0037|consen 115 EFKALWKYINQWRNVFRTYDRDRSGTID 142 (221)
T ss_pred HHHHHHHHHHHHHHHHHhcccCCCCccc
Confidence 4777777 589999999999864
No 45
>PF10503 Esterase_phd: Esterase PHB depolymerase
Probab=23.46 E-value=67 Score=26.02 Aligned_cols=26 Identities=12% Similarity=0.261 Sum_probs=19.7
Q ss_pred HHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 15 ACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 15 Ai~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
.|.-.-+.|... ++||++|+|||=+.
T Consensus 80 ~i~~lv~~v~~~-~~iD~~RVyv~G~S 105 (220)
T PF10503_consen 80 FIAALVDYVAAR-YNIDPSRVYVTGLS 105 (220)
T ss_pred hHHHHHHhHhhh-cccCCCceeeEEEC
Confidence 355545556666 99999999999885
No 46
>PRK10151 ribosomal-protein-L7/L12-serine acetyltransferase; Provisional
Probab=22.17 E-value=1.9e+02 Score=21.08 Aligned_cols=46 Identities=11% Similarity=0.065 Sum_probs=31.6
Q ss_pred HHHHHHHHHhhcCCCCCCCCCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCee
Q psy6338 13 RDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIK 69 (135)
Q Consensus 13 ~eAi~~awefLT~~~lgl~~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~ 69 (135)
.||++.+-+++.+. +| .+||++.|+. .-..|.++.+++|...+-++
T Consensus 111 tea~~~l~~~~~~~-~~--~~ri~~~v~~--------~N~~S~~v~ek~Gf~~~g~~ 156 (179)
T PRK10151 111 SQALQALIHHYAQS-GE--LRRFVIKCRV--------DNPASNQVALRNGFTLEGCL 156 (179)
T ss_pred HHHHHHHHHHHHhh-CC--ccEEEEEEcC--------CCHHHHHHHHHCCCEEEeEe
Confidence 35665555555433 33 5689999996 46689999999997655444
No 47
>KOG1593|consensus
Probab=22.13 E-value=1.3e+02 Score=26.41 Aligned_cols=12 Identities=42% Similarity=0.545 Sum_probs=9.5
Q ss_pred HHHHHHHHHhhc
Q psy6338 13 RDACRMALEFLT 24 (135)
Q Consensus 13 ~eAi~~awefLT 24 (135)
++||+-||..|.
T Consensus 109 kdai~vA~~Vle 120 (349)
T KOG1593|consen 109 KDAIRVARHVLE 120 (349)
T ss_pred HHHHHHHHHHHh
Confidence 589999997663
No 48
>COG0722 AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=21.78 E-value=27 Score=30.83 Aligned_cols=7 Identities=57% Similarity=0.700 Sum_probs=5.3
Q ss_pred CCCceeEE
Q psy6338 86 CGYSSEIH 93 (135)
Q Consensus 86 CGPcSEI~ 93 (135)
+|||| ||
T Consensus 58 iGPCS-iH 64 (351)
T COG0722 58 IGPCS-IH 64 (351)
T ss_pred EeCCc-cC
Confidence 67888 75
No 49
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=21.77 E-value=82 Score=23.48 Aligned_cols=23 Identities=30% Similarity=0.562 Sum_probs=19.8
Q ss_pred CCHHHHHHHHhcCCCCCCeeecC
Q psy6338 50 CDEETLDIWLELGVPRDHIKKEG 72 (135)
Q Consensus 50 ~D~Ea~~iW~~~gv~~~rI~~~~ 72 (135)
..+|+++.-.+.|||++||.-.|
T Consensus 144 ase~~~~~l~~~Gi~~~~I~vtG 166 (169)
T PF06925_consen 144 ASEEVKEELIERGIPPERIHVTG 166 (169)
T ss_pred CCHHHHHHHHHcCCChhHEEEeC
Confidence 57899999999999999998654
No 50
>PF04371 PAD_porph: Porphyromonas-type peptidyl-arginine deiminase; InterPro: IPR007466 Peptidyl-arginine deiminase (PAD) enzymes catalyse the deimination of the guanidino group from carboxy-terminal arginine residues of various peptides to produce ammonia. PAD from Porphyromonas gingivalis (Bacteroides gingivalis) (PPAD) appears to be evolutionarily unrelated to mammalian PAD (IPR004303 from INTERPRO), which is a metalloenzyme. PPAD is thought to belong to the same superfamily as aminotransferase and arginine deiminase, and to form an alpha/beta propeller structure. This family has previously been named PPADH (Porphyromonas peptidyl-arginine deiminase homologs) []. The predicted catalytic residues in PPAD (Q9RQJ2 from SWISSPROT) are Asp130, Asp187, His236, Asp238 and Cys351 []. These are absolutely conserved with the exception of Asp187 which is absent in two family members. PPAD is also able to catalyse the deimination of free L-arginine, but has primarily peptidyl-arginine specificity. It may have a FMN cofactor [].; PDB: 2Q3U_A 1VKP_A 3H7C_X 3H7K_A 2EWO_K 1ZBR_B 1XKN_A 2JER_B 3HVM_A 2CMU_A.
Probab=21.70 E-value=69 Score=27.32 Aligned_cols=37 Identities=24% Similarity=0.348 Sum_probs=27.8
Q ss_pred CCceEEEEecCCCCCCCCCCHHHHHHHHhcCCCCCCeeecCCcc
Q psy6338 32 LDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKC 75 (135)
Q Consensus 32 ~~rL~vTv~~gd~~~g~~~D~Ea~~iW~~~gv~~~rI~~~~~~d 75 (135)
.+.++|-+|+ .+.|++|.++++++ .|..+|+.+...+
T Consensus 277 n~~VivP~fg------~~~D~~Al~~l~~~-fP~r~Vv~i~~~~ 313 (329)
T PF04371_consen 277 NGAVIVPVFG------DPADEAALEILQEA-FPDRKVVGIDARE 313 (329)
T ss_dssp TTEEEEEE-S------STTHHHHHHHHHHH-STTSEEEEEETHH
T ss_pred CCEEEEccCC------ChHHHHHHHHHHHH-CCCCEEEEEeHHH
Confidence 3567888884 35799999999998 7888888775443
No 51
>PF11735 CAP59_mtransfer: Cryptococcal mannosyltransferase 1 ; InterPro: IPR021047 The capsule of pathogenic fungi is a complex polysaccharide whose formation is determined by a number of enzymes including, most importantly, alpha-1,3-mannosyltransferase 1 [, ]. It is responsible for addition of mannose residues in an alpha-1,3 linkage to a polymannosly precursor.
Probab=21.51 E-value=85 Score=26.00 Aligned_cols=16 Identities=6% Similarity=0.287 Sum_probs=13.3
Q ss_pred CCCCCceEEEEecCCC
Q psy6338 29 SLPLDRLYFTYFGGSD 44 (135)
Q Consensus 29 gl~~~rL~vTv~~gd~ 44 (135)
-|-|++++||||+++.
T Consensus 29 ~LGp~nv~vSIyE~~S 44 (241)
T PF11735_consen 29 FLGPENVFVSIYESGS 44 (241)
T ss_pred HhCcCeEEEEEEeCCC
Confidence 3558999999999876
No 52
>PF07788 DUF1626: Protein of unknown function (DUF1626); InterPro: IPR012431 This is a family consisting of sequences from hypothetical proteins of unknown function expressed by certain species of archaea. One member (Q9YCN7 from SWISSPROT) is thought to be similar to tropomyosin [].
Probab=20.81 E-value=1.6e+02 Score=20.19 Aligned_cols=33 Identities=30% Similarity=0.400 Sum_probs=24.6
Q ss_pred HhhcCCCCCCCCCceE-EEEecCCCCCCCCCCHHHHHHHHhcCC
Q psy6338 21 EFLTKPPVSLPLDRLY-FTYFGGSDQYGLPCDEETLDIWLELGV 63 (135)
Q Consensus 21 efLT~~~lgl~~~rL~-vTv~~gd~~~g~~~D~Ea~~iW~~~gv 63 (135)
+|-++. .|...+|++ ||.|- |+.|.+.=+++||
T Consensus 36 ~lYek~-~grk~~r~ivVtp~i---------d~~a~~~A~~LGI 69 (70)
T PF07788_consen 36 ELYEKV-HGRKVDRLIVVTPYI---------DDRAKEMAEELGI 69 (70)
T ss_pred HHHHHH-HCCCcceEEEEEeec---------CHHHHHHHHHhCC
Confidence 566666 788867766 89994 7778888777875
No 53
>COG5132 BUD31 Cell cycle control protein, G10 family [Transcription / Cell division and chromosome partitioning]
Probab=20.57 E-value=69 Score=24.82 Aligned_cols=13 Identities=31% Similarity=0.721 Sum_probs=11.6
Q ss_pred CCHHHHHHHHhcC
Q psy6338 50 CDEETLDIWLELG 62 (135)
Q Consensus 50 ~D~Ea~~iW~~~g 62 (135)
.|.|-..-|.+.|
T Consensus 84 aD~~LiakW~k~G 96 (146)
T COG5132 84 ADHELIAKWDKVG 96 (146)
T ss_pred cchhHhhhhcccc
Confidence 5899999999987
No 54
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=20.48 E-value=1.5e+02 Score=20.32 Aligned_cols=29 Identities=3% Similarity=-0.024 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCceEEEEec
Q psy6338 12 KRDACRMALEFLTKPPVSLPLDRLYFTYFG 41 (135)
Q Consensus 12 K~eAi~~awefLT~~~lgl~~~rL~vTv~~ 41 (135)
|++-++-.=+++.+. ||.+++.+.|.+-.
T Consensus 18 K~~La~~iT~a~~~~-lg~~~e~v~V~I~e 46 (76)
T PRK01271 18 KAALAADITDVIIRH-LNSKDSSISIALQQ 46 (76)
T ss_pred HHHHHHHHHHHHHHH-hCcCcceEEEEEEE
Confidence 445555555667777 99999999999974
Done!