Query psy15857
Match_columns 455
No_of_seqs 350 out of 1511
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 23:08:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15857.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15857hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00115 CASc Caspase, inter 100.0 2E-49 4.3E-54 386.4 19.4 211 17-229 1-230 (241)
2 cd00032 CASc Caspase, interleu 100.0 2.6E-47 5.6E-52 371.9 19.3 213 16-229 1-234 (243)
3 KOG3573|consensus 100.0 8.4E-31 1.8E-35 263.2 8.9 200 6-205 52-257 (300)
4 PF00656 Peptidase_C14: Caspas 99.9 4.9E-21 1.1E-25 184.6 17.1 175 25-202 1-205 (248)
5 smart00115 CASc Caspase, inter 99.7 3.3E-18 7.1E-23 167.0 9.8 108 291-413 1-109 (241)
6 cd00032 CASc Caspase, interleu 99.6 4.8E-16 1E-20 151.9 9.7 120 290-424 1-120 (243)
7 COG4249 Uncharacterized protei 98.3 4.2E-07 9.1E-12 94.3 3.5 197 23-233 2-220 (380)
8 KOG3573|consensus 98.2 7.9E-07 1.7E-11 89.7 2.3 137 279-430 51-188 (300)
9 PF00656 Peptidase_C14: Caspas 98.1 1E-05 2.2E-10 77.9 8.3 71 378-450 1-78 (248)
10 KOG1546|consensus 95.3 0.25 5.3E-06 50.2 11.9 116 23-144 62-206 (362)
11 PF12770 CHAT: CHAT domain 94.4 0.35 7.7E-06 47.5 10.7 102 28-145 82-201 (287)
12 PF01650 Peptidase_C13: Peptid 93.6 0.22 4.8E-06 49.4 7.5 100 68-188 78-188 (256)
13 PF14538 Raptor_N: Raptor N-te 91.2 5.2 0.00011 36.7 12.7 83 50-143 50-145 (154)
14 COG5206 GPI8 Glycosylphosphati 73.1 8.7 0.00019 38.3 6.1 72 70-146 110-194 (382)
15 KOG1349|consensus 70.4 9.1 0.0002 38.0 5.5 56 90-146 138-194 (309)
16 PF13684 Dak1_2: Dihydroxyacet 69.8 34 0.00074 34.9 9.9 103 320-438 16-144 (313)
17 cd02012 TPP_TK Thiamine pyroph 63.8 34 0.00074 33.5 8.3 57 25-84 158-214 (255)
18 PF00763 THF_DHG_CYH: Tetrahyd 54.4 38 0.00083 29.3 6.1 55 22-85 28-85 (117)
19 PRK00394 transcription factor; 51.3 26 0.00056 33.0 4.8 125 288-415 37-177 (179)
20 PF03484 B5: tRNA synthetase B 50.5 17 0.00037 28.5 2.9 27 315-341 12-38 (70)
21 TIGR03599 YloV DAK2 domain fus 50.4 1E+02 0.0022 34.0 9.8 102 321-438 236-362 (530)
22 PLN02204 diacylglycerol kinase 48.0 83 0.0018 35.2 8.7 69 21-96 157-225 (601)
23 TIGR02964 xanthine_xdhC xanthi 46.3 34 0.00074 33.7 5.0 26 398-423 107-132 (246)
24 PRK11914 diacylglycerol kinase 42.1 1.6E+02 0.0036 29.4 9.3 54 24-84 9-62 (306)
25 PRK14188 bifunctional 5,10-met 41.9 1.1E+02 0.0024 31.1 8.0 70 23-103 32-106 (296)
26 PRK14569 D-alanyl-alanine synt 41.7 98 0.0021 30.9 7.6 66 24-104 4-69 (296)
27 TIGR02964 xanthine_xdhC xanthi 41.2 66 0.0014 31.7 6.1 101 319-434 107-209 (246)
28 COG4249 Uncharacterized protei 39.7 61 0.0013 34.1 5.9 56 298-355 3-58 (380)
29 PRK14179 bifunctional 5,10-met 39.4 1.3E+02 0.0029 30.4 8.0 70 23-103 32-106 (284)
30 PRK14189 bifunctional 5,10-met 39.2 1.3E+02 0.0028 30.5 7.9 72 22-104 31-107 (285)
31 PRK14176 bifunctional 5,10-met 39.1 1.5E+02 0.0032 30.1 8.3 70 23-103 38-112 (287)
32 smart00874 B5 tRNA synthetase 39.0 27 0.00058 27.0 2.4 28 313-340 10-37 (71)
33 PF00456 Transketolase_N: Tran 37.1 1E+02 0.0022 31.8 7.0 105 289-416 168-277 (332)
34 PRK14167 bifunctional 5,10-met 36.1 1.4E+02 0.0031 30.3 7.7 70 23-103 31-105 (297)
35 PRK14174 bifunctional 5,10-met 36.1 1.5E+02 0.0032 30.2 7.8 72 22-104 30-106 (295)
36 PRK14168 bifunctional 5,10-met 35.5 1.5E+02 0.0033 30.2 7.7 71 23-104 33-108 (297)
37 PRK14171 bifunctional 5,10-met 34.6 1.8E+02 0.0038 29.6 8.1 70 23-103 32-106 (288)
38 PRK14169 bifunctional 5,10-met 34.0 1.8E+02 0.0038 29.5 7.9 71 22-103 29-104 (282)
39 PRK14184 bifunctional 5,10-met 33.8 1.9E+02 0.004 29.4 8.1 70 23-103 31-105 (286)
40 PRK14180 bifunctional 5,10-met 33.8 1.6E+02 0.0035 29.8 7.6 70 23-103 31-105 (282)
41 PF01471 PG_binding_1: Putativ 33.6 39 0.00084 24.8 2.5 39 47-85 2-40 (57)
42 smart00340 HALZ homeobox assoc 33.6 30 0.00064 24.9 1.6 16 319-334 2-17 (44)
43 COG0513 SrmB Superfamily II DN 33.4 1.6E+02 0.0036 32.0 8.3 48 24-84 273-321 (513)
44 PRK14190 bifunctional 5,10-met 33.2 1.7E+02 0.0037 29.6 7.7 71 22-103 31-106 (284)
45 PLN02897 tetrahydrofolate dehy 32.6 1.8E+02 0.0039 30.3 7.9 71 23-104 86-161 (345)
46 PF13478 XdhC_C: XdhC Rossmann 32.5 64 0.0014 28.8 4.1 53 45-103 5-67 (136)
47 PF03698 UPF0180: Uncharacteri 32.1 54 0.0012 26.9 3.2 38 45-96 5-42 (80)
48 PLN02616 tetrahydrofolate dehy 32.1 1.8E+02 0.004 30.5 7.8 70 23-103 103-177 (364)
49 PRK10792 bifunctional 5,10-met 31.6 1.8E+02 0.0038 29.5 7.5 70 23-103 33-107 (285)
50 PF09827 CRISPR_Cas2: CRISPR a 31.6 2.3E+02 0.005 22.2 6.9 53 47-99 13-68 (78)
51 PRK14173 bifunctional 5,10-met 31.6 1.7E+02 0.0038 29.6 7.4 71 23-104 29-104 (287)
52 PRK11192 ATP-dependent RNA hel 31.1 3.2E+02 0.0069 28.7 9.8 50 23-85 244-294 (434)
53 PLN02516 methylenetetrahydrofo 30.9 2.3E+02 0.005 28.9 8.2 71 23-104 39-114 (299)
54 cd02012 TPP_TK Thiamine pyroph 30.6 91 0.002 30.5 5.2 54 299-355 158-211 (255)
55 PRK14185 bifunctional 5,10-met 30.6 2E+02 0.0044 29.3 7.7 70 23-103 31-105 (293)
56 cd04518 TBP_archaea archaeal T 30.5 67 0.0014 30.1 4.0 94 287-385 37-146 (174)
57 PRK14187 bifunctional 5,10-met 30.5 2.2E+02 0.0049 28.9 8.0 72 22-104 31-107 (294)
58 PRK14193 bifunctional 5,10-met 30.5 2.2E+02 0.0047 28.9 7.9 71 23-104 32-107 (284)
59 PRK14182 bifunctional 5,10-met 30.1 1.8E+02 0.004 29.4 7.3 72 22-104 29-105 (282)
60 PRK14177 bifunctional 5,10-met 29.8 2.2E+02 0.0048 28.8 7.8 71 23-104 33-108 (284)
61 PRK14181 bifunctional 5,10-met 29.0 2.1E+02 0.0045 29.1 7.4 70 23-103 26-100 (287)
62 PF00781 DAGK_cat: Diacylglyce 28.8 3.7E+02 0.0081 23.0 8.7 81 50-148 17-97 (130)
63 PRK14191 bifunctional 5,10-met 28.6 2.4E+02 0.0052 28.6 7.9 71 23-104 31-106 (285)
64 PRK14178 bifunctional 5,10-met 28.6 2.5E+02 0.0054 28.4 7.9 72 22-104 25-101 (279)
65 PRK14183 bifunctional 5,10-met 28.3 2.3E+02 0.005 28.7 7.6 72 22-104 30-106 (281)
66 PLN02958 diacylglycerol kinase 27.3 2.6E+02 0.0057 30.3 8.4 105 22-149 110-215 (481)
67 PF10137 TIR-like: Predicted n 27.0 1.1E+02 0.0023 27.1 4.5 47 403-449 13-62 (125)
68 PRK14172 bifunctional 5,10-met 26.8 2.4E+02 0.0053 28.4 7.5 70 24-104 33-107 (278)
69 PRK14166 bifunctional 5,10-met 26.3 2.8E+02 0.006 28.1 7.8 70 23-103 30-104 (282)
70 PF10137 TIR-like: Predicted n 26.1 99 0.0021 27.4 4.1 83 50-140 13-101 (125)
71 PF02878 PGM_PMM_I: Phosphoglu 26.1 4E+02 0.0087 23.2 8.1 78 40-123 47-132 (137)
72 KOG1321|consensus 26.0 4.4E+02 0.0095 27.4 9.0 111 313-449 101-237 (395)
73 PRK14175 bifunctional 5,10-met 26.0 2.8E+02 0.006 28.1 7.7 71 22-103 31-106 (286)
74 PRK14186 bifunctional 5,10-met 25.7 2.8E+02 0.0061 28.3 7.8 71 23-104 32-107 (297)
75 PF06866 DUF1256: Protein of u 25.7 4.5E+02 0.0098 24.5 8.4 96 73-176 10-131 (163)
76 PRK14170 bifunctional 5,10-met 24.8 2.9E+02 0.0063 28.0 7.6 71 22-103 30-105 (284)
77 PRK14194 bifunctional 5,10-met 23.9 3.1E+02 0.0067 28.0 7.7 72 22-104 32-108 (301)
78 PRK14569 D-alanyl-alanine synt 23.7 1.9E+02 0.0042 28.8 6.2 56 392-451 13-69 (296)
79 PF01927 Mut7-C: Mut7-C RNAse 23.5 2.3E+02 0.0051 25.4 6.2 78 323-417 8-85 (147)
80 PF03484 B5: tRNA synthetase B 23.5 86 0.0019 24.4 2.9 25 43-67 14-38 (70)
81 cd02001 TPP_ComE_PpyrDC Thiami 23.3 3.1E+02 0.0066 24.8 7.0 55 25-84 89-143 (157)
82 COG3959 Transketolase, N-termi 22.7 2.5E+02 0.0055 27.7 6.4 42 44-85 185-229 (243)
83 COG2185 Sbm Methylmalonyl-CoA 22.1 2.6E+02 0.0056 25.5 6.0 53 396-448 22-75 (143)
84 cd00568 TPP_enzymes Thiamine p 22.0 1.5E+02 0.0033 26.2 4.7 59 24-84 92-157 (168)
85 COG3580 Uncharacterized protei 22.0 1.2E+02 0.0026 31.3 4.2 41 407-449 40-82 (351)
86 PF00919 UPF0004: Uncharacteri 21.9 2.6E+02 0.0056 23.4 5.7 41 46-86 12-66 (98)
87 PRK09004 FMN-binding protein M 21.8 2E+02 0.0043 25.7 5.4 48 44-103 12-60 (146)
88 PRK14763 coenzyme PQQ biosynth 21.3 51 0.0011 21.1 0.9 10 333-342 11-20 (26)
89 PF04577 DUF563: Protein of un 21.2 1.9E+02 0.0042 26.4 5.3 52 49-111 120-173 (206)
90 cd03372 TPP_ComE Thiamine pyro 21.0 4.7E+02 0.01 24.1 7.8 66 26-100 90-156 (179)
91 PF02775 TPP_enzyme_C: Thiamin 20.6 98 0.0021 27.4 3.1 59 24-85 74-145 (153)
92 cd02004 TPP_BZL_OCoD_HPCL Thia 20.5 3.5E+02 0.0077 24.4 6.9 59 24-84 94-160 (172)
93 cd03371 TPP_PpyrDC Thiamine py 20.5 3.1E+02 0.0068 25.5 6.6 70 25-102 96-166 (188)
94 PRK10590 ATP-dependent RNA hel 20.5 3.2E+02 0.0069 29.1 7.4 39 46-84 254-293 (456)
95 cd07062 Peptidase_S66_mccF_lik 20.5 2E+02 0.0043 29.1 5.6 51 47-97 17-74 (308)
96 KOG1546|consensus 20.4 4.3E+02 0.0093 27.5 7.8 76 371-450 59-151 (362)
97 COG3959 Transketolase, N-termi 20.4 3.3E+02 0.0071 26.9 6.6 60 289-355 166-225 (243)
98 PRK14192 bifunctional 5,10-met 20.1 4.5E+02 0.0097 26.4 8.0 53 23-84 33-88 (283)
No 1
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=100.00 E-value=2e-49 Score=386.42 Aligned_cols=211 Identities=36% Similarity=0.573 Sum_probs=183.2
Q ss_pred eeCCCCceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh-hcCCCCceEEE
Q psy15857 17 YRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE-QDYTDADCFVM 95 (455)
Q Consensus 17 Y~m~~~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~-~d~~~~d~~vv 95 (455)
|+|+++|+|+||||||..|. .+.+|.|+++|+++|+++|++|||+|+++.|+|..||++.|++|++ .+|..+||++|
T Consensus 1 Y~m~~~p~g~alII~n~~f~--~~~~r~g~~~D~~~l~~~f~~lgF~V~~~~dlt~~em~~~l~~~~~~~~~~~~d~~v~ 78 (241)
T smart00115 1 YRMNSKPRGLALIINNENFH--SLPRRNGTDVDAENLTELFQSLGYEVHVKNNLTAEEMLEELKEFAERPEHSDSDSFVC 78 (241)
T ss_pred CCCCCCCCcEEEEEECccCC--CCcCCCCcHHHHHHHHHHHHHCCCEEEEecCCCHHHHHHHHHHHHhccccCCCCEEEE
Confidence 99999999999999999998 5899999999999999999999999999999999999999999998 58999999999
Q ss_pred EEecCCCCceeeeeCCc-cChhhhHHhhccccccccCCCceEEEEecccCCccCCCceeeecc-----CCCCCCCcCCCC
Q psy15857 96 AVLTHGEDGILHAKDVP-YKPKNLWSKFTADNCLTLAGKPKLFFIQACQGDKLDAGVTIRTQV-----DGHPSNTYSIPL 169 (455)
Q Consensus 96 vilSHG~~g~I~g~D~~-v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~~~d~gv~~~~~~-----d~~~~~~~~iP~ 169 (455)
||||||.+|.|+++|+. |++++|++.|.+.+||+|++||||||||||||++.+.|+...... ........++|.
T Consensus 79 ~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~c~~L~~kPKlffiqACRg~~~~~g~~~~~~~~~~~~~~~~~~~~~~p~ 158 (241)
T smart00115 79 VLLSHGEEGGIYGTDHSPLPLDEIFSLFNGDNCPSLAGKPKLFFIQACRGDELDGGVPVEDDVDDPPTEFEDDAIYKIPV 158 (241)
T ss_pred EEcCCCCCCeEEEecCCEEEHHHHHHhccccCChhhcCCCcEEEEeCCCCCCCCCCeecccccccccccccccccccCCC
Confidence 99999999999999995 999999999999999999999999999999999999887642111 111234568899
Q ss_pred CCCEEEEEccCCCCccccCc----hhHHHHHHHHhHh----HHHHhhhcccCCCCcccc----ccccccccC
Q psy15857 170 HADFLMAYSTISDSPMFGQR----FGLKDKCSKVVSK----TYQVMSSNVDTSNGECQT----DGHESHTNG 229 (455)
Q Consensus 170 ~aD~Li~yST~pG~vS~R~~----~fIq~Lc~~~~~~----~~~~m~~~~~~~~~e~~~----~~~~~~~~~ 229 (455)
.+|+||+|||+|||+|||++ ||||+||+.|.+. .+.-|..+|++.+..... ..|.||..+
T Consensus 159 ~~D~li~ysT~pG~va~r~~~~gS~fi~~L~~~l~~~~~~~~l~~ilt~V~~~V~~~~~~~~~~kQ~p~~~s 230 (241)
T smart00115 159 EADFLAAYSTTPGYVSWRNPTRGSWFIQSLCQVLKEYARSLDLLDILTEVNRKVAVKFESVHAKKQMPTIES 230 (241)
T ss_pred cCcEEEEEeCCCCeEeecCCCCCchHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhhhcccCCcEeCCccEe
Confidence 99999999999999999976 8999999998873 355677777776655432 345555443
No 2
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=100.00 E-value=2.6e-47 Score=371.89 Aligned_cols=213 Identities=36% Similarity=0.569 Sum_probs=185.3
Q ss_pred ceeCCCCceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEE
Q psy15857 16 YYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVM 95 (455)
Q Consensus 16 ~Y~m~~~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vv 95 (455)
.|+|++.++|+||||||..|.. .+..|.||.+|+++|+++|++|||+|+++.|+|.+||.+.|++|++.++..+||++|
T Consensus 1 ~y~m~~~~~g~aLII~n~~f~~-~~~~r~g~~~D~~~l~~~f~~lgF~V~~~~nlt~~~~~~~l~~f~~~~~~~~d~~v~ 79 (243)
T cd00032 1 IYKMNSKRRGLALIINNENFDK-GLKDRDGTDVDAENLTKLFESLGYEVEVKNNLTAEEILEELKEFASPDHSDSDSFVC 79 (243)
T ss_pred CcCCCCCCCCEEEEEechhcCC-CCCCCCChHHHHHHHHHHHHHCCCEEEEeCCCCHHHHHHHHHHHHhccCCCCCeeEE
Confidence 4999999999999999999973 388999999999999999999999999999999999999999999877999999999
Q ss_pred EEecCCCCceeeeeCCc-cChhhhHHhhccccccccCCCceEEEEecccCCccCCCceeeeccC--------CCCCCCcC
Q psy15857 96 AVLTHGEDGILHAKDVP-YKPKNLWSKFTADNCLTLAGKPKLFFIQACQGDKLDAGVTIRTQVD--------GHPSNTYS 166 (455)
Q Consensus 96 vilSHG~~g~I~g~D~~-v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~~~d~gv~~~~~~d--------~~~~~~~~ 166 (455)
||||||.++.|+|+|+. |++++|++.|.+.+||+|.+||||||||||||++.+.|+......+ +.......
T Consensus 80 ~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~~~sl~~kPKl~~iqACRg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (243)
T cd00032 80 VILSHGEEGGIYGTDGDVVPIDEITSLFNGDNCPSLAGKPKLFFIQACRGDELDLGVEVDSGADEPPDVETEAEDDAVQT 159 (243)
T ss_pred EECCCCCCCEEEEecCcEEEHHHHHHhhccCCCccccCCCcEEEEECCCCCcCCCceeccCccccccccccccccccccC
Confidence 99999999999999965 9999999999999999999999999999999999998865421111 12235678
Q ss_pred CCCCCCEEEEEccCCCCccccCc----hhHHHHHHHHhHhH----HHHhhhcccCCCCcccc----ccccccccC
Q psy15857 167 IPLHADFLMAYSTISDSPMFGQR----FGLKDKCSKVVSKT----YQVMSSNVDTSNGECQT----DGHESHTNG 229 (455)
Q Consensus 167 iP~~aD~Li~yST~pG~vS~R~~----~fIq~Lc~~~~~~~----~~~m~~~~~~~~~e~~~----~~~~~~~~~ 229 (455)
+|..+|+||+|||+|||+|||++ ||||+||+.|.+.. ...|..++++.+..-.. ..|.||..+
T Consensus 160 ~p~~~d~lv~ysT~pG~~a~r~~~~gS~fi~~l~~~l~~~~~~~~l~~il~~V~~~V~~~~~~~~~~kQ~P~~~s 234 (243)
T cd00032 160 IPVEADFLVAYSTVPGYVSWRNTKKGSWFIQSLCQVLRKYAHSLDLLDILTKVNRKVAEKFESVNGKKQMPCFRS 234 (243)
T ss_pred CCCcccEEEEecCCCCeEeecCCCCCCEeHHHHHHHHHHhCCCCcHHHHHHHHHHHHhhhhccCCCceeCCcccc
Confidence 89999999999999999999976 89999999998753 55567777766665544 577777644
No 3
>KOG3573|consensus
Probab=99.97 E-value=8.4e-31 Score=263.21 Aligned_cols=200 Identities=31% Similarity=0.455 Sum_probs=180.2
Q ss_pred ccccccCCCCceeCCCCceeEEEEEeCCCCCC-CCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh
Q psy15857 6 AKSTVEKDADYYRMDHKHRGLALIFNHEHFDS-PHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 6 ~~~~~~~~~~~Y~m~~~~~G~aLIInN~~F~~-~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~ 84 (455)
++.+....+..|.|.+..++.++|+++.+|.. ..+..|.|+..|+..|.+.++.++|.+...++.+..+|...+++++.
T Consensus 52 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~r~~~~~l~~~l~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 131 (300)
T KOG3573|consen 52 ERKPKRSSASTYDMALLELEKLLILGKQNLDLLIDLKSRVGTELLATILESYERDLGFEVTTANDDIPGEMQSLLKEVSY 131 (300)
T ss_pred hccCCCccccccccchhhhHHhhhcChhhcchhhccccccChHHHHHHHHHhhhccCCCccccCccccHHHHHHHHHhhh
Confidence 45566667788999999999999999999986 46889999999999999999999999999999999999999999999
Q ss_pred hcCCCCceEEEEEecCCCCceeeeeCCccChhhhHHhhccccccccCCCceEEEEecccCCccCCCceeeecc-CCCCCC
Q psy15857 85 QDYTDADCFVMAVLTHGEDGILHAKDVPYKPKNLWSKFTADNCLTLAGKPKLFFIQACQGDKLDAGVTIRTQV-DGHPSN 163 (455)
Q Consensus 85 ~d~~~~d~~vvvilSHG~~g~I~g~D~~v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~~~d~gv~~~~~~-d~~~~~ 163 (455)
.++.+.+|+.+...|||+...+++.+..+++++|+..|.+.+||+|.+|||+||||||||.+.+.|+...... +.....
T Consensus 132 ~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~i~~~f~~~~c~~L~~kPK~~~iqac~g~~~~~~~~~~~~~~~~~~~~ 211 (300)
T KOG3573|consen 132 LDDSDNNCTACSMLSHGEEKHIYAKDDVLPLEDIFHGFNGANCPSLKGKPKVFFIQACRGDQLDLGVFPDVDTEKLDDDA 211 (300)
T ss_pred hcccccchhhhhhhcccccceeccCCCeeeHHHHHHHhhhccChhhhcCCcEEEehhccCCCCCCCccccccccccccch
Confidence 9999999999999999999999999999999999999999999999999999999999999999888651111 112245
Q ss_pred CcCCCCCCCEEEEEccCCCCccccCc----hhHHHHHHHHhHhHHH
Q psy15857 164 TYSIPLHADFLMAYSTISDSPMFGQR----FGLKDKCSKVVSKTYQ 205 (455)
Q Consensus 164 ~~~iP~~aD~Li~yST~pG~vS~R~~----~fIq~Lc~~~~~~~~~ 205 (455)
.+.+|.++|||++|||+|||+|||++ ||||+||+.+.+....
T Consensus 212 ~~~ips~aD~L~~~st~~g~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 212 TYKIPSEADFLVSYSTTPGYVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred hccCccccceeEeeecCCCceeeecCCCceeeHHHHHHHHHHhcch
Confidence 77889999999999999999999987 8999999988888654
No 4
>PF00656 Peptidase_C14: Caspase domain; InterPro: IPR011600 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences represent the p20 (20kDa) and p10 (10kDa) subunits of caspases, which together form the catalytic domain of the caspase and are derived from the p45 (45 kDa) precursor (IPR002398 from INTERPRO) []. Caspases (Cysteine-dependent ASPartyl-specific proteASE) are cysteine peptidases that belong to the MEROPS peptidase family C14 (caspase family, clan CD) based on the architecture of their catalytic dyad or triad []. Caspases are tightly regulated proteins that require zymogen activation to become active, and once active can be regulated by caspase inhibitors. Activated caspases act as cysteine proteases, using the sulphydryl group of a cysteine side chain for catalysing peptide bond cleavage at aspartyl residues in their substrates. The catalytic cysteine and histidine residues are on the p20 subunit after cleavage of the p45 precursor. Caspases are mainly involved in mediating cell death (apoptosis) [, , ]. They have two main roles within the apoptosis cascade: as initiators that trigger the cell death process, and as effectors of the process itself. Caspase-mediated apoptosis follows two main pathways, one extrinsic and the other intrinsic or mitochondrial-mediated. The extrinsic pathway involves the stimulation of various TNF (tumour necrosis factor) cell surface receptors on cells targeted to die by various TNF cytokines that are produced by cells such as cytotoxic T cells. The activated receptor transmits the signal to the cytoplasm by recruiting FADD, which forms a death-inducing signalling complex (DISC) with caspase-8. The subsequent activation of caspase-8 initiates the apoptosis cascade involving caspases 3, 4, 6, 7, 9 and 10. The intrinsic pathway arises from signals that originate within the cell as a consequence of cellular stress or DNA damage. The stimulation or inhibition of different Bcl-2 family receptors results in the leakage of cytochrome c from the mitochondria, and the formation of an apoptosome composed of cytochrome c, Apaf1 and caspase-9. The subsequent activation of caspase-9 initiates the apoptosis cascade involving caspases 3 and 7, among others. At the end of the cascade, caspases act on a variety of signal transduction proteins, cytoskeletal and nuclear proteins, chromatin-modifying proteins, DNA repair proteins and endonucleases that destroy the cell by disintegrating its contents, including its DNA. The different caspases have different domain architectures depending upon where they fit into the apoptosis cascades, however they all carry the catalytic p10 and p20 subunits. Caspases can have roles other than in apoptosis, such as caspase-1 (interleukin-1 beta convertase) (3.4.22.36 from EC), which is involved in the inflammatory process. The activation of apoptosis can sometimes lead to caspase-1 activation, providing a link between apoptosis and inflammation, such as during the targeting of infected cells. Caspases may also be involved in cell differentiation [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1M72_C 2NN3_C 3V4L_A 3IBF_B 2QLF_D 2QLB_C 3IBC_B 2QL9_A 3R5K_B 3H1P_A ....
Probab=99.86 E-value=4.9e-21 Score=184.62 Aligned_cols=175 Identities=18% Similarity=0.227 Sum_probs=144.1
Q ss_pred eEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEE--ecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCC
Q psy15857 25 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKP--YHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGE 102 (455)
Q Consensus 25 G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~--~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~ 102 (455)
++||||+|..|.. ..+|.|+.+|++.|+++|+++||.|.. ..|+|.++|.+.|+++.+... ..|+++|+|++||.
T Consensus 1 ~~AliIg~~~y~~--~~~L~~~~~D~~~~~~~L~~~gf~~~~~l~~~~t~~~i~~~l~~l~~~~~-~~D~~~~yfsGHG~ 77 (248)
T PF00656_consen 1 KRALIIGVNYYQN--PPPLPGAVNDAEAMAEALEKLGFDVENILIDNATRANILKALRELLQRAQ-PGDSVVFYFSGHGI 77 (248)
T ss_dssp EEEEEEEESSTSS--TCHCTTHHHHHHHHHHHHHHTTEEEEEEEEESSSHHHHHHHHHHHHTSGG-TCSEEEEEEESEEE
T ss_pred CEEEEEEeeCCCC--CCCCCCHHHHHHHHHHHHHHcCCceeeccccchHHHHHHHHHhhhhccCC-CCCeeEEEEecccc
Confidence 6899999999984 489999999999999999999999999 999999999999999997644 67999999999997
Q ss_pred C------ceeeeeCCc-cChhh---hHHhhccccccccCCCceEEEEecccCCccCCCceeeeccC-------------C
Q psy15857 103 D------GILHAKDVP-YKPKN---LWSKFTADNCLTLAGKPKLFFIQACQGDKLDAGVTIRTQVD-------------G 159 (455)
Q Consensus 103 ~------g~I~g~D~~-v~~~~---I~~~F~~~~c~~L~gKPKlFfiQACRG~~~d~gv~~~~~~d-------------~ 159 (455)
. +.+.+.|+. ++++. +...|....|+.+..|||+||+|+||+.....+........ .
T Consensus 78 ~~~~~~~~~~~~~d~~~~~~d~~~~~~~~l~~~~~~~~~~~~k~~ilD~C~sg~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (248)
T PF00656_consen 78 QVDGEGGDEDSGYDGYLLPLDANLILDDELRDLLCKSLPKKPKLFILDCCRSGGFIDGLSSSSGESSKREERKLSSSIPP 157 (248)
T ss_dssp TETTCCSTEEEETSSEEEEHHHHEEHHHHTSTTTTGGGTTS-EEEEEESESSSBTBCEEEEEESSSTSS-EECHCCCCCC
T ss_pred ccCCccCcccccccceeeecchhhhHHHHHhhhhhhhccCCccEEeeccccCCccCCccccccccccccccccccccccc
Confidence 5 467777887 78887 88899988899999999999999999987665443211110 1
Q ss_pred CCCCCcCCCCCCCEEEEEccCCCCccccCc-----hhHHHHHHHHhHh
Q psy15857 160 HPSNTYSIPLHADFLMAYSTISDSPMFGQR-----FGLKDKCSKVVSK 202 (455)
Q Consensus 160 ~~~~~~~iP~~aD~Li~yST~pG~vS~R~~-----~fIq~Lc~~~~~~ 202 (455)
........|..+++++++||.+|++||+.. +|++.||+.|.+.
T Consensus 158 ~~~~~~~~~~~~~~~~~~as~~~~~s~e~~~~~~g~ft~~L~~~L~~~ 205 (248)
T PF00656_consen 158 EDPNRSDVPSPSGFIVLSASRPGQTSYEDSPGSGGLFTYALLEALKGN 205 (248)
T ss_dssp SSCCSEEEETTTSEEEEESSSTTBCEEEECTTTEEHHHHHHHHHHHHH
T ss_pred cccccccccCCCCcEEEEeccccceeecccCccCHHHHHHHHHHHHhh
Confidence 112334556778999999999999999982 5999999988554
No 5
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=99.75 E-value=3.3e-18 Score=167.00 Aligned_cols=108 Identities=24% Similarity=0.382 Sum_probs=99.3
Q ss_pred ccCCCCcceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhcCCCcccccccccccc
Q psy15857 291 YRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEGPVAKSTVEKDADYY 370 (455)
Q Consensus 291 Y~m~~~~rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k~~~~~s~~~~~~~~Y 370 (455)
|+|+|+|||+||||||.+|. .++.|.||.+|+++|.++|++|||+|+++.|++.+||.+.|+ +..
T Consensus 1 Y~m~~~p~g~alII~n~~f~--~~~~r~g~~~D~~~l~~~f~~lgF~V~~~~dlt~~em~~~l~-------------~~~ 65 (241)
T smart00115 1 YRMNSKPRGLALIINNENFH--SLPRRNGTDVDAENLTELFQSLGYEVHVKNNLTAEEMLEELK-------------EFA 65 (241)
T ss_pred CCCCCCCCcEEEEEECccCC--CCcCCCCcHHHHHHHHHHHHHCCCEEEEecCCCHHHHHHHHH-------------HHH
Confidence 99999999999999999997 599999999999999999999999999999999999999998 445
Q ss_pred cC-CCCcccEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhc
Q psy15857 371 RM-DHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNL 413 (455)
Q Consensus 371 ~m-~~~~~g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~L 413 (455)
++ +|...++++++..+|+..+.+.+.+|..++++.|...|+.-
T Consensus 66 ~~~~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~ 109 (241)
T smart00115 66 ERPEHSDSDSFVCVLLSHGEEGGIYGTDHSPLPLDEIFSLFNGD 109 (241)
T ss_pred hccccCCCCEEEEEEcCCCCCCeEEEecCCEEEHHHHHHhcccc
Confidence 53 78889999999999998888899999899999999999643
No 6
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=99.64 E-value=4.8e-16 Score=151.88 Aligned_cols=120 Identities=26% Similarity=0.371 Sum_probs=103.7
Q ss_pred cccCCCCcceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhcCCCccccccccccc
Q psy15857 290 YYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEGPVAKSTVEKDADY 369 (455)
Q Consensus 290 ~Y~m~~~~rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k~~~~~s~~~~~~~~ 369 (455)
.|+|++.+||+||||||.+|.. .++.|.||..|++.|.++|++|||+|.++.|++.+||.+.|+ +.
T Consensus 1 ~y~m~~~~~g~aLII~n~~f~~-~~~~r~g~~~D~~~l~~~f~~lgF~V~~~~nlt~~~~~~~l~-------------~f 66 (243)
T cd00032 1 IYKMNSKRRGLALIINNENFDK-GLKDRDGTDVDAENLTKLFESLGYEVEVKNNLTAEEILEELK-------------EF 66 (243)
T ss_pred CcCCCCCCCCEEEEEechhcCC-CCCCCCChHHHHHHHHHHHHHCCCEEEEeCCCCHHHHHHHHH-------------HH
Confidence 3999999999999999999973 489999999999999999999999999999999999999998 45
Q ss_pred ccCCCCcccEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhcCCeEEEecCCC
Q psy15857 370 YRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPE 424 (455)
Q Consensus 370 Y~m~~~~~g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF~V~~~~dlt 424 (455)
.+.++.+.++++++..+|+..+.+.+.++..+.++.|...|.... ++.+.++|+
T Consensus 67 ~~~~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~-~~sl~~kPK 120 (243)
T cd00032 67 ASPDHSDSDSFVCVILSHGEEGGIYGTDGDVVPIDEITSLFNGDN-CPSLAGKPK 120 (243)
T ss_pred HhccCCCCCeeEEEECCCCCCCEEEEecCcEEEHHHHHHhhccCC-CccccCCCc
Confidence 556788899999999999988778888888889999999987544 334444443
No 7
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=98.29 E-value=4.2e-07 Score=94.32 Aligned_cols=197 Identities=14% Similarity=0.083 Sum_probs=130.5
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCC
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGE 102 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~ 102 (455)
.++.||||.|..+. .-....+..+|+..++.++..+||+|....|+....|+..|+.|+.. ....+.++++..+||.
T Consensus 2 ~~r~alvigns~~~--~aa~l~np~~da~~~a~~L~~iGfdvy~~~d~~~~~~~~~L~~f~~d-a~ga~~al~~~aGhg~ 78 (380)
T COG4249 2 ERRVALVIGNSTYY--VAAPLANPANDAGAMALWLTAIGFDVYLDTDLPKSGLRRALRYFAED-AEGADVALIYYAGHGL 78 (380)
T ss_pred CcceEEEeecCccc--ccccCCCchhhHHHHHHHHHHcCceeecccccchHHHHhHHHHHHHH-HHHHhHHHhhhccccc
Confidence 47889999999776 35567789999999999999999999999999999999999999964 3446789999999998
Q ss_pred C----ceeeeeCCc-----------cChhhhHHhhccccccccCCCceEEEEecccCCccC-CCceeeeccCCCCCCCcC
Q psy15857 103 D----GILHAKDVP-----------YKPKNLWSKFTADNCLTLAGKPKLFFIQACQGDKLD-AGVTIRTQVDGHPSNTYS 166 (455)
Q Consensus 103 ~----g~I~g~D~~-----------v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~~~d-~gv~~~~~~d~~~~~~~~ 166 (455)
+ +.+...|.. +.++.+..++. ...+-+++|.++||.+... ..... ...-|.. .
T Consensus 79 Q~~~~~~~~pv~~~~~~~~~~~~~~v~~~~~~~~~p------~~~~V~~~~lD~~~~~~~~d~~~~~-fsG~g~~----~ 147 (380)
T COG4249 79 QVDGTNYLLPVDADDVSPTFAVTEAVLIDCRLIPLP------ARTKVRRVLLDAARDNPPADTILFF-FSGHGAT----P 147 (380)
T ss_pred cccCccccccchhhhccccchhhhhhhhhhhcccCC------chhHHHHHHHHHhhcCchhhhhhhe-eeccccc----c
Confidence 5 345555542 22222222222 3455678999999988762 21111 0011100 0
Q ss_pred CCCCCCEEEEEccCCCCccccCch----hHHHHHHHHhHhHHHH--hhhcccCCCCccccccccccccCCCCc
Q psy15857 167 IPLHADFLMAYSTISDSPMFGQRF----GLKDKCSKVVSKTYQV--MSSNVDTSNGECQTDGHESHTNGSAVG 233 (455)
Q Consensus 167 iP~~aD~Li~yST~pG~vS~R~~~----fIq~Lc~~~~~~~~~~--m~~~~~~~~~e~~~~~~~~~~~~s~~~ 233 (455)
-....++|+++.|.||.++++... +-..+...+.+...++ |...+|..+..-+...+.+|...|...
T Consensus 148 ~~d~~~~lia~~t~p~~~a~~~~~~~s~~~~~~~~~~~~~~~ql~~~d~~~~~~~~~~~~~~~~p~l~~s~~~ 220 (380)
T COG4249 148 GADGRAYLIAFDTRPGAVAYDGEGGISPYSVAQALHLSEPGNQLVDLDACVRGDVFKATAGQQRPWLAQSLAR 220 (380)
T ss_pred CCCCceeEEeecCChhhhcccCCCcccHHHHHHHHHhccCCceeehhhhhcchhhhcccccccchHhhhhhhc
Confidence 023345999999999999986552 3333333344444333 445555555555555666776666554
No 8
>KOG3573|consensus
Probab=98.16 E-value=7.9e-07 Score=89.72 Aligned_cols=137 Identities=19% Similarity=0.145 Sum_probs=109.2
Q ss_pred cccccccCccccccCCCCcceEEEEEeCCCCCC-CCCCCCCCChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhcCC
Q psy15857 279 VAKSTVEKDADYYRMDHKHRGLALIFNHEHFDS-PHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEGP 357 (455)
Q Consensus 279 ~a~~~~~~~~~~Y~m~~~~rG~~lI~n~~~F~~-~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k~~ 357 (455)
.+++|....+..|+|+|..+|.++|+++++|+. ..+..|.||..|+.+|++.+..++|.|..+++.+..+|...++.
T Consensus 51 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~r~~~~~l~~~l~~~~~~~~~~v~~~~~~~~~~~~~~~~~-- 128 (300)
T KOG3573|consen 51 DERKPKRSSASTYDMALLELEKLLILGKQNLDLLIDLKSRVGTELLATILESYERDLGFEVTTANDDIPGEMQSLLKE-- 128 (300)
T ss_pred hhccCCCccccccccchhhhHHhhhcChhhcchhhccccccChHHHHHHHHHhhhccCCCccccCccccHHHHHHHHH--
Confidence 467778788899999999999999999999996 47999999999999999999999999999999999999999984
Q ss_pred CcccccccccccccCCCCcccEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhcCCeEEEecCCCHHHHHH
Q psy15857 358 VAKSTVEKDADYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQN 430 (455)
Q Consensus 358 ~~~s~~~~~~~~Y~m~~~~~g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF~V~~~~dlt~~eI~~ 430 (455)
.-.+.|....+..+...++... ....-.....+...|...|.... ++.+.++|+.--|+.
T Consensus 129 -----------~~~~~~~~~~~~~~~~~s~~~~-~~~~~~~~~~~~~~i~~~f~~~~-c~~L~~kPK~~~iqa 188 (300)
T KOG3573|consen 129 -----------VSYLDDSDNNCTACSMLSHGEE-KHIYAKDDVLPLEDIFHGFNGAN-CPSLKGKPKVFFIQA 188 (300)
T ss_pred -----------hhhhcccccchhhhhhhccccc-ceeccCCCeeeHHHHHHHhhhcc-ChhhhcCCcEEEehh
Confidence 3345555556665555555421 11223344478899999998887 688888887755543
No 9
>PF00656 Peptidase_C14: Caspase domain; InterPro: IPR011600 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences represent the p20 (20kDa) and p10 (10kDa) subunits of caspases, which together form the catalytic domain of the caspase and are derived from the p45 (45 kDa) precursor (IPR002398 from INTERPRO) []. Caspases (Cysteine-dependent ASPartyl-specific proteASE) are cysteine peptidases that belong to the MEROPS peptidase family C14 (caspase family, clan CD) based on the architecture of their catalytic dyad or triad []. Caspases are tightly regulated proteins that require zymogen activation to become active, and once active can be regulated by caspase inhibitors. Activated caspases act as cysteine proteases, using the sulphydryl group of a cysteine side chain for catalysing peptide bond cleavage at aspartyl residues in their substrates. The catalytic cysteine and histidine residues are on the p20 subunit after cleavage of the p45 precursor. Caspases are mainly involved in mediating cell death (apoptosis) [, , ]. They have two main roles within the apoptosis cascade: as initiators that trigger the cell death process, and as effectors of the process itself. Caspase-mediated apoptosis follows two main pathways, one extrinsic and the other intrinsic or mitochondrial-mediated. The extrinsic pathway involves the stimulation of various TNF (tumour necrosis factor) cell surface receptors on cells targeted to die by various TNF cytokines that are produced by cells such as cytotoxic T cells. The activated receptor transmits the signal to the cytoplasm by recruiting FADD, which forms a death-inducing signalling complex (DISC) with caspase-8. The subsequent activation of caspase-8 initiates the apoptosis cascade involving caspases 3, 4, 6, 7, 9 and 10. The intrinsic pathway arises from signals that originate within the cell as a consequence of cellular stress or DNA damage. The stimulation or inhibition of different Bcl-2 family receptors results in the leakage of cytochrome c from the mitochondria, and the formation of an apoptosome composed of cytochrome c, Apaf1 and caspase-9. The subsequent activation of caspase-9 initiates the apoptosis cascade involving caspases 3 and 7, among others. At the end of the cascade, caspases act on a variety of signal transduction proteins, cytoskeletal and nuclear proteins, chromatin-modifying proteins, DNA repair proteins and endonucleases that destroy the cell by disintegrating its contents, including its DNA. The different caspases have different domain architectures depending upon where they fit into the apoptosis cascades, however they all carry the catalytic p10 and p20 subunits. Caspases can have roles other than in apoptosis, such as caspase-1 (interleukin-1 beta convertase) (3.4.22.36 from EC), which is involved in the inflammatory process. The activation of apoptosis can sometimes lead to caspase-1 activation, providing a link between apoptosis and inflammation, such as during the targeting of infected cells. Caspases may also be involved in cell differentiation [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1M72_C 2NN3_C 3V4L_A 3IBF_B 2QLF_D 2QLB_C 3IBC_B 2QL9_A 3R5K_B 3H1P_A ....
Probab=98.09 E-value=1e-05 Score=77.90 Aligned_cols=71 Identities=24% Similarity=0.285 Sum_probs=64.7
Q ss_pred cEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhcCCeEEE--ecCCCHHHHHHHHHh-----cCCcEEEEEEecccCC
Q psy15857 378 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKP--YHDPEFKVIQNAIDE-----GKDALIPSLFLPHSNK 450 (455)
Q Consensus 378 g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF~V~~--~~dlt~~eI~~~l~~-----~~~~cfv~~ilSHG~~ 450 (455)
+.||||.+..|... ..+.|+..|++.|.++|+.+||.+.. ..++|.++|.+.|++ ...|+++|++++||..
T Consensus 1 ~~AliIg~~~y~~~--~~L~~~~~D~~~~~~~L~~~gf~~~~~l~~~~t~~~i~~~l~~l~~~~~~~D~~~~yfsGHG~~ 78 (248)
T PF00656_consen 1 KRALIIGVNYYQNP--PPLPGAVNDAEAMAEALEKLGFDVENILIDNATRANILKALRELLQRAQPGDSVVFYFSGHGIQ 78 (248)
T ss_dssp EEEEEEEESSTSST--CHCTTHHHHHHHHHHHHHHTTEEEEEEEEESSSHHHHHHHHHHHHTSGGTCSEEEEEEESEEET
T ss_pred CEEEEEEeeCCCCC--CCCCCHHHHHHHHHHHHHHcCCceeeccccchHHHHHHHHHhhhhccCCCCCeeEEEEeccccc
Confidence 46899999999753 88999999999999999999999998 999999999999998 4668999999999964
No 10
>KOG1546|consensus
Probab=95.25 E-value=0.25 Score=50.24 Aligned_cols=116 Identities=17% Similarity=0.209 Sum_probs=74.5
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHh-CCcEE---EEe--------cCCCHHHHHHHHHHHHhhcCCCC
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVN-LGFVV---KPY--------HDPEFKVIQNAIDEAAEQDYTDA 90 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~-LGF~V---~~~--------~nlt~~em~~~l~~~s~~d~~~~ 90 (455)
.+.+||||.. +|.. ...+..|-.+|+.+|++++-+ +||.- .+. .-+|.+-|..+|+.+.+... .-
T Consensus 62 gkrrAvLiGI-NY~g-Tk~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~~s~~~~PT~~Nir~Al~wLV~~aq-~g 138 (362)
T KOG1546|consen 62 GKRRAVLIGI-NYPG-TKNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTDESPVRIPTGKNIRRALRWLVESAQ-PG 138 (362)
T ss_pred ccceEEEEee-cCCC-cHHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCCCcccccCcHHHHHHHHHHHHhcCC-CC
Confidence 3455888875 3432 345678999999999987754 89982 222 23688999999999987533 34
Q ss_pred ceEEEEEecCCCC------c-------eeeeeCC----ccChhhhHHhhccccccccCCCceEEEEecccC
Q psy15857 91 DCFVMAVLTHGED------G-------ILHAKDV----PYKPKNLWSKFTADNCLTLAGKPKLFFIQACQG 144 (455)
Q Consensus 91 d~~vvvilSHG~~------g-------~I~g~D~----~v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG 144 (455)
|++|+=+.+||.+ + .|+..|- +|=-++++..+-. |--.|-.=-.|+++|--
T Consensus 139 D~LvfHYSGHGtr~~~~~gDe~dG~DE~I~P~D~~t~G~iIdDe~~r~lV~---plp~G~~lt~I~DSCHS 206 (362)
T KOG1546|consen 139 DSLVFHYSGHGTRQPDTNGDEVDGYDETIVPCDHNTQGPIIDDEIFRILVR---PLPKGCKLTAISDSCHS 206 (362)
T ss_pred CEEEEEecCCCCcCCCCCCCCCCCCcceeecccccccccccchHHHHHHHh---ccCCCceEEEEeecccC
Confidence 9999999999984 1 3555553 2222344444331 11134444567789973
No 11
>PF12770 CHAT: CHAT domain
Probab=94.41 E-value=0.35 Score=47.53 Aligned_cols=102 Identities=20% Similarity=0.265 Sum_probs=77.2
Q ss_pred EEEeCCCCCC-----CCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCC
Q psy15857 28 LIFNHEHFDS-----PHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGE 102 (455)
Q Consensus 28 LIInN~~F~~-----~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~ 102 (455)
|+|.+-.+.. ....+..++...++.|.+++..-+-.+.+....|.+++.+.+ ... .+=++-|.+||.
T Consensus 82 l~i~~p~~~~~~~~~~~~~~l~~~~~e~~~l~~~~~~~~~~~~~~~~at~~~l~~~l------~~~--~~~ilH~a~Hg~ 153 (287)
T PF12770_consen 82 LVIGNPDFGGSLIRGAALSPLPGAQREADALAELLGAGGLRVLVGPEATKDALLEAL------ERR--GPDILHFAGHGT 153 (287)
T ss_pred EEEecCCCcccccccccccCchHHHHHHHHHHHHhcccceeEeeccCCCHHHHHhhh------ccC--CCCEEEEEcccc
Confidence 8888877652 124667888889999999999877788899999999999888 112 233899999998
Q ss_pred Cc-------eeeee------CCccChhhhHHhhccccccccCCCceEEEEecccCC
Q psy15857 103 DG-------ILHAK------DVPYKPKNLWSKFTADNCLTLAGKPKLFFIQACQGD 145 (455)
Q Consensus 103 ~g-------~I~g~------D~~v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~ 145 (455)
.+ .+.-. ++.++..+|.. +. |.+ |+++|+.||...
T Consensus 154 ~~~~~~~~~~l~l~~~~~~~~~~l~~~~l~~-l~------l~~-~~lVvLsaC~s~ 201 (287)
T PF12770_consen 154 FDPDPPDQSGLVLSDESGQEDGLLSAEELAQ-LD------LRG-PRLVVLSACESA 201 (287)
T ss_pred cCCCCCCCCEEEEeccCCCCCcccCHHHHHh-hc------CCC-CCEEEecCcCCc
Confidence 54 45544 33489999988 32 333 999999999987
No 12
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=93.65 E-value=0.22 Score=49.40 Aligned_cols=100 Identities=17% Similarity=0.293 Sum_probs=64.6
Q ss_pred cCCCHHHHHHHHHHHHh----h--cCCCCceEEEEEecCCCCceeeeeCC-ccChhhhHHhhccccccccCCCce----E
Q psy15857 68 HDPEFKVIQNAIDEAAE----Q--DYTDADCFVMAVLTHGEDGILHAKDV-PYKPKNLWSKFTADNCLTLAGKPK----L 136 (455)
Q Consensus 68 ~nlt~~em~~~l~~~s~----~--d~~~~d~~vvvilSHG~~g~I~g~D~-~v~~~~I~~~F~~~~c~~L~gKPK----l 136 (455)
.+.|.+.+...|+-=.. + ....-|-++|++.+||+.+.|.-.+. .+.-.+|...|.. +..+-+ +
T Consensus 78 ~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~HG~~~~l~~~~~~~l~~~~L~~~L~~-----m~~~~~y~~lv 152 (256)
T PF01650_consen 78 EDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTGHGGPGFLKFPDGEELTADDLADALDK-----MHEKKRYKKLV 152 (256)
T ss_pred cccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEeccCCCCcccCCCcccccHHHHHHHHHH-----HHhhCCcceEE
Confidence 35666666655542111 0 12456789999999999998766554 4777777777753 333444 8
Q ss_pred EEEecccCCccCCCceeeeccCCCCCCCcCCCCCCCEEEEEccCCCCccccC
Q psy15857 137 FFIQACQGDKLDAGVTIRTQVDGHPSNTYSIPLHADFLMAYSTISDSPMFGQ 188 (455)
Q Consensus 137 FfiQACRG~~~d~gv~~~~~~d~~~~~~~~iP~~aD~Li~yST~pG~vS~R~ 188 (455)
|+++||...-+-.+ +|...++++.=|+.++..||=.
T Consensus 153 ~~veaC~SGs~~~~----------------L~~~~nv~~iTAa~~~e~Sy~~ 188 (256)
T PF01650_consen 153 FVVEACYSGSFFEG----------------LLKSPNVYVITAANADESSYGC 188 (256)
T ss_pred EEEecccccchhhc----------------cCCCCCEEEEecCCcccccccc
Confidence 99999997533221 2344578888888887777643
No 13
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=91.21 E-value=5.2 Score=36.69 Aligned_cols=83 Identities=16% Similarity=0.188 Sum_probs=62.7
Q ss_pred HHHHHHHHHhC--CcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCC-----ceeeeeCC------ccChh
Q psy15857 50 FENLYTTLVNL--GFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGED-----GILHAKDV------PYKPK 116 (455)
Q Consensus 50 ~~~L~~~F~~L--GF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~-----g~I~g~D~------~v~~~ 116 (455)
.+.|..-++++ .-.+....|+|.+++++.+..+++.... +-+++-+.+||.. |.|+..|. ++++.
T Consensus 50 ~~~l~~qY~~~~~~~~~~~~~dpt~e~~~~~~~~~R~~a~~--~RvLFHYnGhGvP~Pt~~GeIw~f~~~~tqyip~si~ 127 (154)
T PF14538_consen 50 GKNLQSQYESWQPRARYKQSLDPTVEDLKRLCQSLRRNAKD--ERVLFHYNGHGVPRPTENGEIWVFNKNYTQYIPLSIY 127 (154)
T ss_pred HHHHHHHHHHhCccCcEEEecCCCHHHHHHHHHHHHhhCCC--ceEEEEECCCCCCCCCCCCeEEEEcCCCCcceEEEHH
Confidence 44455555555 3457788899999999999999875332 6789999999983 77887664 36788
Q ss_pred hhHHhhccccccccCCCceEEEEeccc
Q psy15857 117 NLWSKFTADNCLTLAGKPKLFFIQACQ 143 (455)
Q Consensus 117 ~I~~~F~~~~c~~L~gKPKlFfiQACR 143 (455)
||.+. .|.|-+|++++..
T Consensus 128 dL~~~---------lg~Psi~V~DC~~ 145 (154)
T PF14538_consen 128 DLQSW---------LGSPSIYVFDCSN 145 (154)
T ss_pred HHHHh---------cCCCEEEEEECCc
Confidence 88774 4789999999753
No 14
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=73.10 E-value=8.7 Score=38.29 Aligned_cols=72 Identities=21% Similarity=0.386 Sum_probs=51.5
Q ss_pred CCHHHHHHHHHHHHhhcC--------CCCceEEEEEecCCCCceeeeeCCc-cChhhhHHhhccccccccCCCc----eE
Q psy15857 70 PEFKVIQNAIDEAAEQDY--------TDADCFVMAVLTHGEDGILHAKDVP-YKPKNLWSKFTADNCLTLAGKP----KL 136 (455)
Q Consensus 70 lt~~em~~~l~~~s~~d~--------~~~d~~vvvilSHG~~g~I~g~D~~-v~~~~I~~~F~~~~c~~L~gKP----Kl 136 (455)
.|.+-+..+|.+-+.++| ...+-++++.-+||+++.+--.|.+ +.-+||...++ .|..|. -+
T Consensus 110 vTve~firLLt~r~~en~p~sKrlltdE~SNIfIYmtGHGgd~FlKFqdaeemtseDladai~-----ql~~~kRyNeIl 184 (382)
T COG5206 110 VTVEVFIRLLTARSGENHPKSKRLLTDESSNIFIYMTGHGGDAFLKFQDAEEMTSEDLADAIS-----QLAAKKRYNEIL 184 (382)
T ss_pred chHHHHHHHHHhhccCCChhhhhhcccccCcEEEEEccCCCccceecccHHHhhhHHHHHHHH-----HHHHhhhhceEE
Confidence 456667777777664443 2345689999999999999888875 88888887765 244433 36
Q ss_pred EEEecccCCc
Q psy15857 137 FFIQACQGDK 146 (455)
Q Consensus 137 FfiQACRG~~ 146 (455)
|.|+.||.+.
T Consensus 185 fmiDTCQAna 194 (382)
T COG5206 185 FMIDTCQANA 194 (382)
T ss_pred EEeeccccch
Confidence 8889999774
No 15
>KOG1349|consensus
Probab=70.44 E-value=9.1 Score=38.00 Aligned_cols=56 Identities=21% Similarity=0.334 Sum_probs=37.3
Q ss_pred CceEEEEEecCCCCceeeeeCCc-cChhhhHHhhccccccccCCCceEEEEecccCCc
Q psy15857 90 ADCFVMAVLTHGEDGILHAKDVP-YKPKNLWSKFTADNCLTLAGKPKLFFIQACQGDK 146 (455)
Q Consensus 90 ~d~~vvvilSHG~~g~I~g~D~~-v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~~ 146 (455)
.+-+++++.+||+++.+--.|.+ +.-+||...++-- ...-+=.--+|+|+.||+..
T Consensus 138 ~SNIlIYmtGHGgd~FlKFqd~eelts~dLadai~qm-~e~~Ryneil~miDTCQaas 194 (309)
T KOG1349|consen 138 GSNILIYLTGHGGDGFLKFQDAEELTSDDLADAIQQM-WEKKRYNEILFMIDTCQAAS 194 (309)
T ss_pred CCcEEEEEccCCCccceecccHHHhhhHHHHHHHHHH-HHhhhhceEEEEeeccchHH
Confidence 34588999999999999888875 6666655544310 00012233478899999874
No 16
>PF13684 Dak1_2: Dihydroxyacetone kinase family
Probab=69.80 E-value=34 Score=34.92 Aligned_cols=103 Identities=20% Similarity=0.193 Sum_probs=65.2
Q ss_pred ChHhHHHHHHHHhhcC-----------CEEEEecCccHHHHHHHhhcCCCcccccccccccc-----------cCCCCcc
Q psy15857 320 TGADFENLYTTLVNLG-----------FVVKPYHDPEFKVIQNAIDEGPVAKSTVEKDADYY-----------RMDHKHR 377 (455)
Q Consensus 320 t~~D~~~l~~~~~~Lg-----------f~V~~~~d~~~~~i~~~l~k~~~~~s~~~~~~~~Y-----------~m~~~~~ 377 (455)
++.|.+.|++.|..+| .+|.+|.|-...-+...++...+...-++.-...+ ......+
T Consensus 16 ~~~~~~~lr~~L~~~GdSlvVv~~~~~~kVHvHT~~Pg~vle~~~~~G~l~~ikIenM~~q~~~~~~~~~~~~~~~~~~~ 95 (313)
T PF13684_consen 16 SPFDAEELRARLEELGDSLVVVGDDDLVKVHVHTNDPGAVLEYALKYGELSKIKIENMREQHEERLKDEDSAADLPKPEK 95 (313)
T ss_pred CcCCHHHHHHHHHhcCCEEEEEecCCeEEEEEeeCCHHHHHHHHHhcCcEEEEEEecCchhhhhhhcccccccccccccC
Confidence 6678999999999999 88999999887777776665332222221111000 1111122
Q ss_pred cEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhcCCeEEEec----CCCHHHHHHHHHhcCCc
Q psy15857 378 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH----DPEFKVIQNAIDEGKDA 438 (455)
Q Consensus 378 g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF~V~~~~----dlt~~eI~~~l~~~~~~ 438 (455)
...+|... +-+.+.++|+.+|..+.+-+ ||+.++|.+.+.+....
T Consensus 96 ~~~vVAv~----------------~g~g~~~lf~~~Gv~~vi~ggqt~nPS~~dl~~Ai~~~~a~ 144 (313)
T PF13684_consen 96 DRGVVAVA----------------PGEGLAELFRSLGVDVVISGGQTMNPSTEDLLNAIEKVGAD 144 (313)
T ss_pred CeEEEEEe----------------cCccHHHHHHhCCCeEEEeCCCCCCCCHHHHHHHHHhCCCC
Confidence 22333221 22567899999998766654 78999999999984443
No 17
>cd02012 TPP_TK Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.
Probab=63.81 E-value=34 Score=33.51 Aligned_cols=57 Identities=18% Similarity=0.201 Sum_probs=41.7
Q ss_pred eEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh
Q psy15857 25 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 25 G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~ 84 (455)
-+.+|+||..+.. ..+.........+.+.|+.+|+.+.....-+.+++.+.+++..+
T Consensus 158 ~li~vvdnN~~~~---~~~~~~~~~~~~~~~~~~a~G~~~~~v~G~d~~~l~~al~~a~~ 214 (255)
T cd02012 158 NLIAIVDSNRIQI---DGPTDDILFTEDLAKKFEAFGWNVIEVDGHDVEEILAALEEAKK 214 (255)
T ss_pred cEEEEEECCCccc---cCcHhhccCchhHHHHHHHcCCeEEEECCCCHHHHHHHHHHHHH
Confidence 4788888877752 22222333457789999999999987776678899999988764
No 18
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=54.37 E-value=38 Score=29.33 Aligned_cols=55 Identities=15% Similarity=0.108 Sum_probs=40.7
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhh
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQ 85 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~ 85 (455)
...++|+|.-+ ++.+|..-++...+.++++|..+..+ .+.|.+++.+.|+++...
T Consensus 28 ~~P~Laii~vg---------~d~~S~~Y~~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~i~~lN~D 85 (117)
T PF00763_consen 28 ITPKLAIILVG---------DDPASISYVRSKQKAAEKLGIEFELIELPEDISEEELLELIEKLNED 85 (117)
T ss_dssp ---EEEEEEES-----------HHHHHHHHHHHHHHHHHT-EEEEEEE-TTSSHHHHHHHHHHHHH-
T ss_pred CCcEEEEEecC---------CChhHHHHHHHHHHHHHHcCCceEEEECCCCcCHHHHHHHHHHHhCC
Confidence 45678888543 34578888999999999999997655 589999999999999864
No 19
>PRK00394 transcription factor; Reviewed
Probab=51.31 E-value=26 Score=32.96 Aligned_cols=125 Identities=20% Similarity=0.237 Sum_probs=73.2
Q ss_pred cccccCCCCcceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEE------Eec---------CccHHHHHHH
Q psy15857 288 ADYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVK------PYH---------DPEFKVIQNA 352 (455)
Q Consensus 288 ~~~Y~m~~~~rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~------~~~---------d~~~~~i~~~ 352 (455)
+-.|++ ..|+-.++||.+=+.-..+-++......=++.+.+.|+.+||++. +.| .+..+++...
T Consensus 37 gli~Rl-~~Pk~t~lIf~sGKiv~tGa~S~~~a~~a~~~~~~~l~~~g~~~~~~~~~~i~NiVas~~l~~~i~L~~la~~ 115 (179)
T PRK00394 37 GLVYRL-EDPKIAALIFRSGKVVCTGAKSVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGVELNLNAIAIG 115 (179)
T ss_pred eEEEEe-cCCceEEEEEcCCcEEEEccCCHHHHHHHHHHHHHHHHHcCCCccCCCceEEEEEEEEEEcCCeEcHHHHHHh
Confidence 345777 477899999999998876777766666667788889999998764 333 2555666554
Q ss_pred hhcCCCccccccc-ccccccCCCCcccEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhcCC
Q psy15857 353 IDEGPVAKSTVEK-DADYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGF 415 (455)
Q Consensus 353 l~k~~~~~s~~~~-~~~~Y~m~~~~~g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF 415 (455)
+. .+...++++. +--.|++. .++-.++||...+.-=.+-+...-...=.+.|...++.+|+
T Consensus 116 ~~-~~~~~YePe~fPglvyR~~-~pk~~~lIF~SGKvvitGaks~~~~~~a~~~i~~~l~~~g~ 177 (179)
T PRK00394 116 LG-LENIEYEPEQFPGLVYRLD-DPKVVVLLFGSGKLVITGAKSEEDAEKAVEKILEKLEELGL 177 (179)
T ss_pred cC-cCCcEECcccCceEEEEec-CCcEEEEEEcCCEEEEEecCCHHHHHHHHHHHHHHHHHcCC
Confidence 41 0123344432 23467765 56666677654332111122222233334455566666664
No 20
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=50.49 E-value=17 Score=28.48 Aligned_cols=27 Identities=26% Similarity=0.340 Sum_probs=19.0
Q ss_pred CCCCCChHhHHHHHHHHhhcCCEEEEe
Q psy15857 315 KSRAGTGADFENLYTTLVNLGFVVKPY 341 (455)
Q Consensus 315 ~~R~Gt~~D~~~l~~~~~~Lgf~V~~~ 341 (455)
+...|.+...+.+.+.|++|||+|..-
T Consensus 12 ~~~lG~~i~~~~i~~~L~~lg~~~~~~ 38 (70)
T PF03484_consen 12 NKLLGIDISPEEIIKILKRLGFKVEKI 38 (70)
T ss_dssp HHHHTS---HHHHHHHHHHTT-EEEE-
T ss_pred HHHhCCCCCHHHHHHHHHHCCCEEEEC
Confidence 345688999999999999999999885
No 21
>TIGR03599 YloV DAK2 domain fusion protein YloV. This model describes a protein family that contains an N-terminal DAK2 domain (pfam02734), so named because of similarity to the dihydroxyacetone kinase family family. The GTP-binding protein CgtA (a member of the obg family) is a bacterial GTPase associated with ribosome biogenesis, and it has a characteristic extension (TIGR03595) in certain lineages. This protein family described here was found, by the method of partial phylognetic profiling, to have a phylogenetic distribution strongly correlated to that of TIGR03595. This correlation implies some form of functional coupling.
Probab=50.45 E-value=1e+02 Score=34.03 Aligned_cols=102 Identities=19% Similarity=0.169 Sum_probs=63.9
Q ss_pred hHhHHHHHHHHhhcC-----------CEEEEecCccHHHHHHHhhcCCCcccccc--ccccc--cc------CCCCcccE
Q psy15857 321 GADFENLYTTLVNLG-----------FVVKPYHDPEFKVIQNAIDEGPVAKSTVE--KDADY--YR------MDHKHRGL 379 (455)
Q Consensus 321 ~~D~~~l~~~~~~Lg-----------f~V~~~~d~~~~~i~~~l~k~~~~~s~~~--~~~~~--Y~------m~~~~~g~ 379 (455)
+.|.+.|++.|..+| .+|.||.|-...-|...++...+...-++ ..+.. .. ....++.+
T Consensus 236 ~~~~~~lr~~L~~~GdSlvvv~~~~~~kVHvHt~~Pg~vle~~~~~G~l~~ikI~nm~~q~~~~~~~~~~~~~~~~~~~~ 315 (530)
T TIGR03599 236 KFDEEKFRKELEKLGDSLVVVGDDDLVKVHVHTNDPGLVLEYGQKYGELIKIKIENMREQHEEILEGTSNEEKKKEEKEY 315 (530)
T ss_pred ccCHHHHHHHHHhcCCEEEEEeCCCeEEEEEecCCHHHHHHHHHHcCceEEEEEeecchhhhhhhccccccccccccCCe
Confidence 346899999999999 88999999888777777764322222221 11100 00 00011222
Q ss_pred EEEEEeccCCCCCCCCCCCcHHhHHHHHHHHHhcCCeEEEec----CCCHHHHHHHHHhcCCc
Q psy15857 380 ALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH----DPEFKVIQNAIDEGKDA 438 (455)
Q Consensus 380 ~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF~V~~~~----dlt~~eI~~~l~~~~~~ 438 (455)
.+|.. . .-+.+.++|+.+|-.+.+.+ ||+.++|.+.++.....
T Consensus 316 ~ivAv-~---------------~g~g~~~~f~~~Ga~~vi~ggqt~nPS~~dll~ai~~~~a~ 362 (530)
T TIGR03599 316 AIVAV-A---------------PGEGIAELFKSLGADVVIEGGQTMNPSTEDILKAIEKVNAK 362 (530)
T ss_pred EEEEE-c---------------CCchHHHHHHHCCCCEEEeCCCCCCCCHHHHHHHHHhCCCC
Confidence 33221 1 33678899999998766644 78999999999984443
No 22
>PLN02204 diacylglycerol kinase
Probab=48.00 E-value=83 Score=35.19 Aligned_cols=69 Identities=7% Similarity=0.138 Sum_probs=45.2
Q ss_pred CCceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEE
Q psy15857 21 HKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMA 96 (455)
Q Consensus 21 ~~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvv 96 (455)
.+++.+.+|||- ...+-.+..-.+.++.+|+..|+++.+..--.+.+..+.+++.++.+...+|.+|++
T Consensus 157 ~r~k~llVivNP-------~sGkg~~~~~~~~V~p~f~~a~i~~~v~~T~~aghA~d~~~~~~~~~l~~~D~VVaV 225 (601)
T PLN02204 157 GRPKNLLVFVHP-------LSGKGSGSRTWETVSPIFIRAKVKTKVIVTERAGHAFDVMASISNKELKSYDGVIAV 225 (601)
T ss_pred CCCceEEEEECC-------CCCCcchHHHHHHHHHHHHHcCCeEEEEEecCcchHHHHHHHHhhhhccCCCEEEEE
Confidence 456677777763 333323445577899999999998777665555666777777665555667765544
No 23
>TIGR02964 xanthine_xdhC xanthine dehydrogenase accessory protein XdhC. Members of this protein family are the accessory protein XdhC for insertion of the molybdenum cofactor into the xanthine dehydrogenase large chain, XdhB, in bacteria. This protein is not part of the mature xanthine dehydrogenase. Xanthine dehydrogenase is an enzyme for purine catabolism, from other purines to xanthine to urate to further breakdown products.
Probab=46.34 E-value=34 Score=33.67 Aligned_cols=26 Identities=23% Similarity=0.111 Sum_probs=22.4
Q ss_pred CcHHhHHHHHHHHHhcCCeEEEecCC
Q psy15857 398 GTGADFENLYTTLVNLGFVVKPYHDP 423 (455)
Q Consensus 398 Gs~~D~e~L~~~F~~LgF~V~~~~dl 423 (455)
|+-.+...|.++...+||+|.+..+-
T Consensus 107 GaG~va~~la~la~~lGf~V~v~D~R 132 (246)
T TIGR02964 107 GAGHVGRALVRALAPLPCRVTWVDSR 132 (246)
T ss_pred CCcHHHHHHHHHHhcCCCEEEEEeCC
Confidence 66779999999999999999986543
No 24
>PRK11914 diacylglycerol kinase; Reviewed
Probab=42.05 E-value=1.6e+02 Score=29.36 Aligned_cols=54 Identities=13% Similarity=0.100 Sum_probs=36.4
Q ss_pred eeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh
Q psy15857 24 RGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 24 ~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~ 84 (455)
+.++||+|= ...+-.+....+.+.+.|++.|+++.++.--...+..+..++...
T Consensus 9 ~~~~iI~NP-------~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~ 62 (306)
T PRK11914 9 GKVTVLTNP-------LSGHGAAPHAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALA 62 (306)
T ss_pred ceEEEEECC-------CCCCCcHHHHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHh
Confidence 456666662 232223456677888999999999887665556777777777654
No 25
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=41.95 E-value=1.1e+02 Score=31.06 Aligned_cols=70 Identities=10% Similarity=0.076 Sum_probs=52.2
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
+.++|+|.-. ++..+..-++.-.+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+.+++-+-
T Consensus 32 ~p~La~i~vg---------~~~~s~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~i~~lN~d--~~V~GIlvq~Pl 100 (296)
T PRK14188 32 TPGLAVVLVG---------EDPASQVYVRSKGKQTKEAGMASFEHKLPADTSQAELLALIARLNAD--PAIHGILVQLPL 100 (296)
T ss_pred CCeEEEEEeC---------CChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCcEEEEeCCC
Confidence 4688888643 45568888999999999999998877 589999999999888753 33455555432
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|-.+
T Consensus 101 p~~~~~ 106 (296)
T PRK14188 101 PKHLDS 106 (296)
T ss_pred CCCCCH
Confidence 56654
No 26
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=41.69 E-value=98 Score=30.93 Aligned_cols=66 Identities=20% Similarity=0.284 Sum_probs=43.1
Q ss_pred eeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCC
Q psy15857 24 RGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGED 103 (455)
Q Consensus 24 ~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~ 103 (455)
..++|+.+= .-.+|.-|-.-++.+.+.++++||+|... |.+..++.. ++.. .+.|.++..+ ||..
T Consensus 4 ~~i~vl~gg------~s~e~~vsl~s~~~v~~aL~~~g~~~~~~-~~~~~~~~~---~l~~---~~~d~vf~~l--hG~~ 68 (296)
T PRK14569 4 EKIVVLYGG------DSPEREVSLKSGKAVLDSLISQGYDAVGV-DASGKELVA---KLLE---LKPDKCFVAL--HGED 68 (296)
T ss_pred cEEEEEeCC------CCCchHhHHHHHHHHHHHHHHcCCEEEEE-cCCchhHHH---Hhhc---cCCCEEEEeC--CCCC
Confidence 456777652 34678889999999999999999998665 444334332 2222 2456554444 8875
Q ss_pred c
Q psy15857 104 G 104 (455)
Q Consensus 104 g 104 (455)
|
T Consensus 69 g 69 (296)
T PRK14569 69 G 69 (296)
T ss_pred C
Confidence 4
No 27
>TIGR02964 xanthine_xdhC xanthine dehydrogenase accessory protein XdhC. Members of this protein family are the accessory protein XdhC for insertion of the molybdenum cofactor into the xanthine dehydrogenase large chain, XdhB, in bacteria. This protein is not part of the mature xanthine dehydrogenase. Xanthine dehydrogenase is an enzyme for purine catabolism, from other purines to xanthine to urate to further breakdown products.
Probab=41.20 E-value=66 Score=31.67 Aligned_cols=101 Identities=15% Similarity=0.071 Sum_probs=54.9
Q ss_pred CChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhcCCCcccccccccccccCCCCcccEEEEEEeccCCCCCCCCCCC
Q psy15857 319 GTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEGPVAKSTVEKDADYYRMDHKHRGLALIFNHEHFDSPHLKSRAG 398 (455)
Q Consensus 319 Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k~~~~~s~~~~~~~~Y~m~~~~~g~~lIin~~~F~~~~l~~R~G 398 (455)
|...++..|.+..+.|||+|++..+-.. .......++.............. .-.+...++|++|.|-
T Consensus 107 GaG~va~~la~la~~lGf~V~v~D~R~~--~~~~~~~~~~~~~~~~~~~~~~~-~~~~~t~vvi~th~h~---------- 173 (246)
T TIGR02964 107 GAGHVGRALVRALAPLPCRVTWVDSREA--EFPEDLPDGVATLVTDEPEAEVA-EAPPGSYFLVLTHDHA---------- 173 (246)
T ss_pred CCcHHHHHHHHHHhcCCCEEEEEeCCcc--cccccCCCCceEEecCCHHHHHh-cCCCCcEEEEEeCChH----------
Confidence 7788999999999999999999986532 11111111100000000011111 1124567777776553
Q ss_pred cHHhHHHHHHHHH--hcCCeEEEecCCCHHHHHHHHHh
Q psy15857 399 TGADFENLYTTLV--NLGFVVKPYHDPEFKVIQNAIDE 434 (455)
Q Consensus 399 s~~D~e~L~~~F~--~LgF~V~~~~dlt~~eI~~~l~~ 434 (455)
.|.+.|...+. ...|-=.+-..-+.+.+.+.|++
T Consensus 174 --~D~~~L~~aL~~~~~~YIG~lGSr~k~~~~~~~L~~ 209 (246)
T TIGR02964 174 --LDLELCHAALRRGDFAYFGLIGSKTKRARFEHRLRA 209 (246)
T ss_pred --HHHHHHHHHHhCCCCcEEEEeCCHHHHHHHHHHHHh
Confidence 47777777773 34442233345556666666655
No 28
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=39.74 E-value=61 Score=34.14 Aligned_cols=56 Identities=20% Similarity=0.180 Sum_probs=44.7
Q ss_pred ceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhc
Q psy15857 298 RGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDE 355 (455)
Q Consensus 298 rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k 355 (455)
|+.||+|=|-.+- ...+....-.|+..+...|..+||+|.-..|+....+...|..
T Consensus 3 ~r~alvigns~~~--~aa~l~np~~da~~~a~~L~~iGfdvy~~~d~~~~~~~~~L~~ 58 (380)
T COG4249 3 RRVALVIGNSTYY--VAAPLANPANDAGAMALWLTAIGFDVYLDTDLPKSGLRRALRY 58 (380)
T ss_pred cceEEEeecCccc--ccccCCCchhhHHHHHHHHHHcCceeecccccchHHHHhHHHH
Confidence 5667777666553 2445667778999999999999999999999998888888764
No 29
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.42 E-value=1.3e+02 Score=30.39 Aligned_cols=70 Identities=11% Similarity=0.139 Sum_probs=51.3
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEE--
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAV-- 97 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvi-- 97 (455)
+.++|+|.- .++..+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+-+++-+
T Consensus 32 ~P~Laii~v---------g~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~~l~~~I~~lN~d--~~V~GIivqlPl 100 (284)
T PRK14179 32 VPGLVVILV---------GDNPASQVYVRNKERSALAAGFKSEVVRLPETISQEELLDLIERYNQD--PTWHGILVQLPL 100 (284)
T ss_pred CceEEEEEe---------CCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEcCCC
Confidence 458888854 345678888999999999999998765 578899999999888753 3345555553
Q ss_pred ecCCCC
Q psy15857 98 LTHGED 103 (455)
Q Consensus 98 lSHG~~ 103 (455)
-.|=.+
T Consensus 101 p~~i~~ 106 (284)
T PRK14179 101 PKHINE 106 (284)
T ss_pred CCCCCH
Confidence 256554
No 30
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.20 E-value=1.3e+02 Score=30.47 Aligned_cols=72 Identities=17% Similarity=0.164 Sum_probs=52.5
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++|+|.-+ ++..+..-++...+.++++|++++.++ +.|.+|+.+.|+++-+. ...+-+++-+-
T Consensus 31 ~~p~Laii~vg---------~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~~l~~~I~~lN~d--~~V~GIlvq~P 99 (285)
T PRK14189 31 HQPGLAVILVG---------DNPASQVYVRNKVKACEDNGFHSLKDRYPADLSEAELLARIDELNRD--PKIHGILVQLP 99 (285)
T ss_pred CCCeEEEEEeC---------CCchHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHcCC--CCCCeEEEeCC
Confidence 34688888643 455788999999999999999987764 78999999999887652 23455555433
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|-.+.
T Consensus 100 lp~~i~~~ 107 (285)
T PRK14189 100 LPKHIDSH 107 (285)
T ss_pred CCCCCCHH
Confidence 466643
No 31
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.06 E-value=1.5e+02 Score=30.13 Aligned_cols=70 Identities=14% Similarity=0.152 Sum_probs=50.7
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.-. ++..+..-++.-.+.++++|+.++.+ .+.|.+|+.+.|+++.+. .+.+.+++-+-
T Consensus 38 ~P~Laii~vg---------~d~aS~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~I~~LN~D--~~V~GIlvqlPL 106 (287)
T PRK14176 38 TPGLATILVG---------DDPASKMYVRLKHKACERVGIRAEDQFLPADTTQEELLELIDSLNKR--KDVHGILLQLPL 106 (287)
T ss_pred CCeEEEEEEC---------CCcchHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEcCCC
Confidence 4588888643 44568899999999999999998765 578899999999888753 23455554432
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 107 P~~i~~ 112 (287)
T PRK14176 107 PKHLDP 112 (287)
T ss_pred CCCCCH
Confidence 45554
No 32
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=38.95 E-value=27 Score=27.02 Aligned_cols=28 Identities=25% Similarity=0.335 Sum_probs=23.8
Q ss_pred CCCCCCCChHhHHHHHHHHhhcCCEEEE
Q psy15857 313 HLKSRAGTGADFENLYTTLVNLGFVVKP 340 (455)
Q Consensus 313 ~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~ 340 (455)
.+....|.+++.+.+.+.|++|||+++.
T Consensus 10 ~i~~llG~~i~~~ei~~~L~~lg~~~~~ 37 (71)
T smart00874 10 RINRLLGLDLSAEEIEEILKRLGFEVEV 37 (71)
T ss_pred HHHHHHCCCCCHHHHHHHHHHCCCeEEe
Confidence 4556778899999999999999999865
No 33
>PF00456 Transketolase_N: Transketolase, thiamine diphosphate binding domain; InterPro: IPR005474 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; PDB: 3M49_B 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 3HYL_A 3RIM_A ....
Probab=37.12 E-value=1e+02 Score=31.85 Aligned_cols=105 Identities=15% Similarity=0.164 Sum_probs=67.9
Q ss_pred ccccCCCCcceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEe-cCccHHHHHHHhhcCCCccccccccc
Q psy15857 289 DYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY-HDPEFKVIQNAIDEGPVAKSTVEKDA 367 (455)
Q Consensus 289 ~~Y~m~~~~rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~-~d~~~~~i~~~l~k~~~~~s~~~~~~ 367 (455)
..|++ .-+.+|+.+..+...+ +.- .+..+.+.+.|+..||+|..- +.=..++|.+.|++.
T Consensus 168 ~~~~L----~nLi~i~D~N~~q~dg---~~~-~~~~~~~~~k~~a~Gw~v~~v~dGhd~~~i~~A~~~a----------- 228 (332)
T PF00456_consen 168 GHYKL----DNLIVIYDSNGIQIDG---PTD-IVFSEDIAKKFEAFGWNVIEVCDGHDVEAIYAAIEEA----------- 228 (332)
T ss_dssp HHTT-----TTEEEEEEEESEETTE---EGG-GTHHSHHHHHHHHTT-EEEEEEETTBHHHHHHHHHHH-----------
T ss_pred HHhCC----CCEEEEEecCCcccCC---Ccc-cccchHHHHHHHHhhhhhcccccCcHHHHHHHHHHHH-----------
Confidence 44665 4589999988876422 211 334578899999999999775 777899999999841
Q ss_pred ccccCCCCcccEEEEEEeccCCCC----CCCCCCCcHHhHHHHHHHHHhcCCe
Q psy15857 368 DYYRMDHKHRGLALIFNHEHFDSP----HLKSRAGTGADFENLYTTLVNLGFV 416 (455)
Q Consensus 368 ~~Y~m~~~~~g~~lIin~~~F~~~----~l~~R~Gs~~D~e~L~~~F~~LgF~ 416 (455)
-.. ..+-.++|+.-..+... +-..-.|+....+.+..+-+.+|+.
T Consensus 229 --~~~--~~kP~~Ii~~TvkG~G~~~~e~~~~~Hg~~l~~ee~~~~k~~lg~~ 277 (332)
T PF00456_consen 229 --KAS--KGKPTVIIARTVKGKGVPFMEGTAKWHGSPLTEEEVEQAKKELGWD 277 (332)
T ss_dssp --HHS--TSS-EEEEEEE-TTTTSTTTTTSGGGTSS--HHHHHHHHHHHTTSS
T ss_pred --Hhc--CCCCceeecceEEecCchhhcccchhhccCCcHHHHHHHHHHcCCC
Confidence 111 13446777777766531 2234557778888898888999986
No 34
>PRK14167 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=36.15 E-value=1.4e+02 Score=30.34 Aligned_cols=70 Identities=16% Similarity=0.197 Sum_probs=50.3
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.- .++..+..-++...+.++++|++++.+ .+.|.+|+.+.|+++.+. ...+-+++-+-
T Consensus 31 ~P~LaiI~v---------g~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvq~PL 99 (297)
T PRK14167 31 TPGLATVLM---------SDDPASETYVSMKQRDCEEVGIEAIDVEIDPDAPAEELYDTIDELNAD--EDVHGILVQMPV 99 (297)
T ss_pred CceEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEcCCC
Confidence 458888853 345678888999999999999998766 478899999999888753 23444444432
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 100 P~~i~~ 105 (297)
T PRK14167 100 PDHVDD 105 (297)
T ss_pred CCCCCH
Confidence 45553
No 35
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=36.06 E-value=1.5e+02 Score=30.20 Aligned_cols=72 Identities=13% Similarity=0.138 Sum_probs=52.0
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++|+|.- .++..+..-++.-.+.++++|++++.+ .+.|.+|+.+.|+++.+. ...+.+++.+-
T Consensus 30 ~~P~Laii~v---------g~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvq~P 98 (295)
T PRK14174 30 KVPGLTVIIV---------GEDPASQVYVRNKAKSCKEIGMNSTVIELPADTTEEHLLKKIEDLNND--PDVHGILVQQP 98 (295)
T ss_pred CCCeEEEEEe---------CCChHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCC
Confidence 3568888864 345568888999999999999998766 478899999999888753 33455555433
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|=++.
T Consensus 99 lp~~id~~ 106 (295)
T PRK14174 99 LPKQIDEF 106 (295)
T ss_pred CCCCCCHH
Confidence 465543
No 36
>PRK14168 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=35.50 E-value=1.5e+02 Score=30.21 Aligned_cols=71 Identities=15% Similarity=0.086 Sum_probs=52.7
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
.+++++|.-+ ++..+..-++...+.++++|+..+.+ .+.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 33 ~P~LaiI~vg---------~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~t~~el~~~I~~lN~D--~~V~GIivqlPl 101 (297)
T PRK14168 33 VPGLVTILVG---------ESPASLSYVTLKIKTAHRLGFHEIQDNQSVDITEEELLALIDKYNND--DSIHGILVQLPL 101 (297)
T ss_pred CCeEEEEEeC---------CCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 4588888644 44568888999999999999998877 589999999999988753 23455555433
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|-.+.
T Consensus 102 P~~i~~~ 108 (297)
T PRK14168 102 PKHINEK 108 (297)
T ss_pred CCCCCHH
Confidence 566643
No 37
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.65 E-value=1.8e+02 Score=29.57 Aligned_cols=70 Identities=9% Similarity=0.071 Sum_probs=50.6
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.-. ++.++..-++.-.+.++++|+.++.++ +.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 32 ~P~LaiI~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~~l~~~I~~LN~D--~~V~GIlvqlPL 100 (288)
T PRK14171 32 SPKLAIVLVG---------DNPASIIYVKNKIKNAHKIGIDTLLVNLSTTIHTNDLISKINELNLD--NEISGIIVQLPL 100 (288)
T ss_pred CCeEEEEEeC---------CCccHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHcCC--CCCCEEEEeCCC
Confidence 4578888643 456788899999999999999987764 78999999999887643 23455554433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 101 P~~id~ 106 (288)
T PRK14171 101 PSSIDK 106 (288)
T ss_pred CCCCCH
Confidence 45554
No 38
>PRK14169 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.04 E-value=1.8e+02 Score=29.50 Aligned_cols=71 Identities=11% Similarity=0.132 Sum_probs=51.1
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++++|.-. ++..+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+-+++-+-
T Consensus 29 ~~P~Laii~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvqlP 97 (282)
T PRK14169 29 VTPTLAVVLVG---------SDPASEVYVRNKQRRAEDIGVRSLMFRLPEATTQADLLAKVAELNHD--PDVDAILVQLP 97 (282)
T ss_pred CCCeEEEEEeC---------CChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCC
Confidence 34578888643 45568888999999999999998776 578899999999888652 23455554433
Q ss_pred --cCCCC
Q psy15857 99 --THGED 103 (455)
Q Consensus 99 --SHG~~ 103 (455)
.|=.+
T Consensus 98 Lp~~i~~ 104 (282)
T PRK14169 98 LPAGLDE 104 (282)
T ss_pred CCCCCCH
Confidence 45554
No 39
>PRK14184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.80 E-value=1.9e+02 Score=29.38 Aligned_cols=70 Identities=17% Similarity=0.251 Sum_probs=51.1
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.- .++.++..-++.-.+.++++|++++.+. +.|.+|+.+.|+++.+. ...+-+++-+-
T Consensus 31 ~P~Laii~v---------g~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~~l~~~I~~lN~d--~~V~GIlvqlPL 99 (286)
T PRK14184 31 APGLAVILV---------GEDPASQVYVRNKERACEDAGIVSEAFRLPADTTQEELEDLIAELNAR--PDIDGILLQLPL 99 (286)
T ss_pred CCEEEEEEe---------CCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CcCceEEEecCC
Confidence 458888854 3456788889999999999999987764 78999999999988742 23444544433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 100 P~~id~ 105 (286)
T PRK14184 100 PKGLDS 105 (286)
T ss_pred CCCCCH
Confidence 45554
No 40
>PRK14180 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.75 E-value=1.6e+02 Score=29.80 Aligned_cols=70 Identities=9% Similarity=0.094 Sum_probs=51.0
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.-. +...+..-++...+.++++|++++.+ .+.|.+|+.+.|+++.+- ...+.+++-+-
T Consensus 31 ~P~La~I~vg---------~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIivq~Pl 99 (282)
T PRK14180 31 TPKLVAIIVG---------NDPASKTYVASKEKACAQVGIDSQVITLPEHTTESELLELIDQLNND--SSVHAILVQLPL 99 (282)
T ss_pred CCeEEEEEeC---------CCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEcCCC
Confidence 4588888644 33457888999999999999999887 789999999999888742 23444544433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|-.+
T Consensus 100 P~~i~~ 105 (282)
T PRK14180 100 PAHINK 105 (282)
T ss_pred CCCCCH
Confidence 46654
No 41
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure. PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
Probab=33.62 E-value=39 Score=24.81 Aligned_cols=39 Identities=21% Similarity=0.229 Sum_probs=32.0
Q ss_pred HHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhh
Q psy15857 47 GADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQ 85 (455)
Q Consensus 47 ~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~ 85 (455)
..|+..|+..|..+||........-..++.++|+.|.+.
T Consensus 2 ~~~v~~lq~~L~~~gy~~~~~~g~~~~~t~~Av~~fQ~~ 40 (57)
T PF01471_consen 2 GPDVKALQQYLNRLGYYPGPVDGIFDPETREAVKAFQKA 40 (57)
T ss_dssp SHHHHHHHHHHHHTTTT-SSTTSBSHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHcCCCCCCCCCCcCHHHHHHHHHHHHH
Confidence 368999999999999985444567788999999999864
No 42
>smart00340 HALZ homeobox associated leucin zipper.
Probab=33.59 E-value=30 Score=24.89 Aligned_cols=16 Identities=31% Similarity=0.169 Sum_probs=14.4
Q ss_pred CChHhHHHHHHHHhhc
Q psy15857 319 GTGADFENLYTTLVNL 334 (455)
Q Consensus 319 Gt~~D~~~l~~~~~~L 334 (455)
-|++||+-|++++..|
T Consensus 2 QTEvdCe~LKrcce~L 17 (44)
T smart00340 2 QTEVDCELLKRCCESL 17 (44)
T ss_pred chHHHHHHHHHHHHHH
Confidence 4899999999999877
No 43
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=33.44 E-value=1.6e+02 Score=32.04 Aligned_cols=48 Identities=23% Similarity=0.258 Sum_probs=41.4
Q ss_pred eeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEE-EecCCCHHHHHHHHHHHHh
Q psy15857 24 RGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVK-PYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 24 ~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~-~~~nlt~~em~~~l~~~s~ 84 (455)
.+.+|||.| +...++.|...+...||.+. ++-+++.++=.+.|..|..
T Consensus 273 ~~~~IVF~~-------------tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~ 321 (513)
T COG0513 273 EGRVIVFVR-------------TKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKD 321 (513)
T ss_pred CCeEEEEeC-------------cHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHc
Confidence 446999887 56889999999999999975 5569999999999999984
No 44
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.22 E-value=1.7e+02 Score=29.62 Aligned_cols=71 Identities=14% Similarity=0.170 Sum_probs=50.6
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++|+|.- .++.++..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+-+++.+-
T Consensus 31 ~~P~Laii~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvq~P 99 (284)
T PRK14190 31 IVPGLAVILV---------GDDPASHSYVRGKKKAAEKVGIYSELYEFPADITEEELLALIDRLNAD--PRINGILVQLP 99 (284)
T ss_pred CCCeEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCC
Confidence 3457888853 345678888999999999999998776 478899999999888653 23455554433
Q ss_pred --cCCCC
Q psy15857 99 --THGED 103 (455)
Q Consensus 99 --SHG~~ 103 (455)
.|=.+
T Consensus 100 Lp~~i~~ 106 (284)
T PRK14190 100 LPKHIDE 106 (284)
T ss_pred CCCCCCH
Confidence 45554
No 45
>PLN02897 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=32.64 E-value=1.8e+02 Score=30.33 Aligned_cols=71 Identities=15% Similarity=0.135 Sum_probs=52.9
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++++|.- ..+..+..-++.-.+..+++|+.++.+ .+.|.+|+.+.|+++-+- ...+-++|-+-
T Consensus 86 ~P~LaiIlv---------GddpaS~~Yv~~k~K~a~~~GI~~~~~~l~~~~te~ell~~I~~lN~D--~~V~GIlVQlPL 154 (345)
T PLN02897 86 VPGLAVVLV---------GQQRDSQTYVRNKIKACEETGIKSLLAELPEDCTEGQILSALRKFNED--TSIHGILVQLPL 154 (345)
T ss_pred CCeEEEEEe---------CCChHHHHHHHHHHHHHHhcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 457888853 455678888999999999999998776 588999999999888753 33555555532
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|-.+.
T Consensus 155 P~hid~~ 161 (345)
T PLN02897 155 PQHLDES 161 (345)
T ss_pred CCCCCHH
Confidence 576654
No 46
>PF13478 XdhC_C: XdhC Rossmann domain; PDB: 3ON5_A 2WE8_B 2WE7_A.
Probab=32.47 E-value=64 Score=28.81 Aligned_cols=53 Identities=23% Similarity=0.253 Sum_probs=0.0
Q ss_pred ChHHhHHHHHHHHHhCCcEEEEecCCCH----------HHHHHHHHHHHhhcCCCCceEEEEEecCCCC
Q psy15857 45 GTGADFENLYTTLVNLGFVVKPYHDPEF----------KVIQNAIDEAAEQDYTDADCFVMAVLTHGED 103 (455)
Q Consensus 45 Gs~~D~~~L~~~F~~LGF~V~~~~nlt~----------~em~~~l~~~s~~d~~~~d~~vvvilSHG~~ 103 (455)
|+..++..|.++...|||.|++..+-.. ....+....+ .-+.+++| +|+|+.+
T Consensus 5 GaG~va~al~~la~~lg~~v~v~d~r~e~~~~~~~~~~~~~~~~~~~~----~~~~~t~V--v~th~h~ 67 (136)
T PF13478_consen 5 GAGHVARALARLAALLGFRVTVVDPRPERFPEADEVICIPPDDILEDL----EIDPNTAV--VMTHDHE 67 (136)
T ss_dssp S-STCHHHHHHHHHHCTEEEEEEES-CCC-TTSSEEECSHHHHHHHHC-----S-TT-EE--E--S-CC
T ss_pred eCcHHHHHHHHHHHhCCCEEEEEcCCccccCCCCccEecChHHHHhcc----CCCCCeEE--EEcCCch
No 47
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=32.13 E-value=54 Score=26.86 Aligned_cols=38 Identities=18% Similarity=0.354 Sum_probs=27.6
Q ss_pred ChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEE
Q psy15857 45 GTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMA 96 (455)
Q Consensus 45 Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvv 96 (455)
+=+....++++.|++-||+|....+-. +...+||+|+-
T Consensus 5 AVE~~Ls~v~~~L~~~GyeVv~l~~~~--------------~~~~~daiVvt 42 (80)
T PF03698_consen 5 AVEEGLSNVKEALREKGYEVVDLENEQ--------------DLQNVDAIVVT 42 (80)
T ss_pred EecCCchHHHHHHHHCCCEEEecCCcc--------------ccCCcCEEEEE
Confidence 344566789999999999999877432 45667877654
No 48
>PLN02616 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=32.10 E-value=1.8e+02 Score=30.48 Aligned_cols=70 Identities=14% Similarity=0.165 Sum_probs=50.9
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.- .++..+..-++...+..+++|++++.++ +.|.+|+.+.|+++-+. ...+-++|-+-
T Consensus 103 ~P~LaiIlv---------G~dpaS~~Yv~~k~K~~e~~GI~~~~~~lpe~~te~ell~~I~~LN~D--~~V~GIlVQlPL 171 (364)
T PLN02616 103 VPGLAVILV---------GDRKDSATYVRNKKKACDSVGINSFEVRLPEDSTEQEVLKFISGFNND--PSVHGILVQLPL 171 (364)
T ss_pred CCeEEEEEe---------CCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHcCC--CCCCEEEEeCCC
Confidence 458888853 3456788889999999999999987664 88889999999888642 33455554433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|-.+
T Consensus 172 P~~id~ 177 (364)
T PLN02616 172 PSHMDE 177 (364)
T ss_pred CCCCCH
Confidence 56654
No 49
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.63 E-value=1.8e+02 Score=29.55 Aligned_cols=70 Identities=19% Similarity=0.278 Sum_probs=49.9
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.- .++..+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+.+++-+-
T Consensus 33 ~P~Laii~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~s~~el~~~I~~lN~d--~~V~GIlvqlPL 101 (285)
T PRK10792 33 APGLAVVLV---------GSDPASQVYVASKRKACEEVGFVSRSYDLPETTSEAELLALIDELNAD--PTIDGILVQLPL 101 (285)
T ss_pred CceEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 458888853 345568888999999999999997766 478999999999888753 23444444432
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 102 P~~~~~ 107 (285)
T PRK10792 102 PAHIDN 107 (285)
T ss_pred CCCCCH
Confidence 45544
No 50
>PF09827 CRISPR_Cas2: CRISPR associated protein Cas2; InterPro: IPR019199 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages. ; PDB: 3EXC_X 2I0X_A 3OQ2_B 3UI3_A 1ZPW_X 2I8E_A 2IVY_A.
Probab=31.63 E-value=2.3e+02 Score=22.22 Aligned_cols=53 Identities=11% Similarity=0.013 Sum_probs=37.4
Q ss_pred HHhHHHHHHHHHhCCcEEE---EecCCCHHHHHHHHHHHHhhcCCCCceEEEEEec
Q psy15857 47 GADFENLYTTLVNLGFVVK---PYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLT 99 (455)
Q Consensus 47 ~~D~~~L~~~F~~LGF~V~---~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilS 99 (455)
.+...++.+.++++|.-+. ..-+++..++...++++.+.-....|.+.++-++
T Consensus 13 ~k~~~kv~k~L~~~g~~iQ~SVf~~~~~~~~~~~l~~~l~~~i~~~~d~i~i~~l~ 68 (78)
T PF09827_consen 13 NKRRNKVRKILKSYGTRIQYSVFEGNLTNAELRKLRRELEKLIDPDEDSIRIYPLC 68 (78)
T ss_dssp HHHHHHHHHHHHHTTEEEETTEEEEEE-HHHHHHHHHHHHHHSCTTTCEEEEEEEE
T ss_pred cHHHHHHHHHHHHhCccccceEEEEEcCHHHHHHHHHHHHhhCCCCCCEEEEEEeC
Confidence 4778899999999995553 3348999999988888886433444777666543
No 51
>PRK14173 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.60 E-value=1.7e+02 Score=29.60 Aligned_cols=71 Identities=8% Similarity=0.003 Sum_probs=51.4
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.- .++.++..-++...+.++++|++++.+ .+.|.+|+.+.|+++-+. ...+.+++-+-
T Consensus 29 ~P~Laii~v---------g~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvqlPL 97 (287)
T PRK14173 29 VPHLRVVRL---------GEDPASVSYVRLKDRQAKALGLRSQVEVLPESTSQEELLELIARLNAD--PEVDGILVQLPL 97 (287)
T ss_pred CCcEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 457888864 345568888999999999999998766 478899999999888652 23455554433
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|-.+.
T Consensus 98 P~~i~~~ 104 (287)
T PRK14173 98 PPHIDFQ 104 (287)
T ss_pred CCCCCHH
Confidence 576654
No 52
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=31.07 E-value=3.2e+02 Score=28.66 Aligned_cols=50 Identities=14% Similarity=0.058 Sum_probs=40.7
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe-cCCCHHHHHHHHHHHHhh
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY-HDPEFKVIQNAIDEAAEQ 85 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~-~nlt~~em~~~l~~~s~~ 85 (455)
..+.+|||.| +...++.|.+.|++.|+.+..+ .+++..+-...++.|...
T Consensus 244 ~~~~~lVF~~-------------s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G 294 (434)
T PRK11192 244 EVTRSIVFVR-------------TRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDG 294 (434)
T ss_pred CCCeEEEEeC-------------ChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCC
Confidence 4467888876 4588999999999999987655 579999999999999753
No 53
>PLN02516 methylenetetrahydrofolate dehydrogenase (NADP+)
Probab=30.95 E-value=2.3e+02 Score=28.94 Aligned_cols=71 Identities=13% Similarity=0.129 Sum_probs=51.6
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
.+++|+|.-+ ++..+..-++.-.+..+++|+.++.+ .+.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 39 ~P~LaiI~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~s~~el~~~I~~lN~D--~~V~GIlvq~Pl 107 (299)
T PLN02516 39 VPGLAVVIVG---------SRKDSQTYVNMKRKACAEVGIKSFDVDLPENISEAELISKVHELNAN--PDVHGILVQLPL 107 (299)
T ss_pred CCeEEEEEEC---------CChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEecCC
Confidence 4588888543 34568888999999999999997665 588999999999988753 23455555433
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|-.+.
T Consensus 108 P~~id~~ 114 (299)
T PLN02516 108 PKHINEE 114 (299)
T ss_pred CCCcCHH
Confidence 576653
No 54
>cd02012 TPP_TK Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.
Probab=30.59 E-value=91 Score=30.52 Aligned_cols=54 Identities=17% Similarity=0.192 Sum_probs=40.8
Q ss_pred eEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhc
Q psy15857 299 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDE 355 (455)
Q Consensus 299 G~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k 355 (455)
=+.+|+||..+.. ..+........++.+.++.+|+++..-+.-+.++|.+.+++
T Consensus 158 ~li~vvdnN~~~~---~~~~~~~~~~~~~~~~~~a~G~~~~~v~G~d~~~l~~al~~ 211 (255)
T cd02012 158 NLIAIVDSNRIQI---DGPTDDILFTEDLAKKFEAFGWNVIEVDGHDVEEILAALEE 211 (255)
T ss_pred cEEEEEECCCccc---cCcHhhccCchhHHHHHHHcCCeEEEECCCCHHHHHHHHHH
Confidence 3789999988853 22333444567889999999999988775678898888873
No 55
>PRK14185 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.55 E-value=2e+02 Score=29.26 Aligned_cols=70 Identities=19% Similarity=0.219 Sum_probs=50.7
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
+.++|+|.- .++..+..-++.-.+.++++|++++.+ .+.|.+|+.+.|+++.+. ...+-+++-+-
T Consensus 31 ~P~LaiI~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvqlPL 99 (293)
T PRK14185 31 RPHLAAILV---------GHDGGSETYVANKVKACEECGFKSSLIRYESDVTEEELLAKVRELNQD--DDVDGFIVQLPL 99 (293)
T ss_pred CCeEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEecCC
Confidence 468888853 455678888999999999999998765 478889999999888743 23455554433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 100 P~~i~~ 105 (293)
T PRK14185 100 PKHISE 105 (293)
T ss_pred CCCCCH
Confidence 56654
No 56
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=30.55 E-value=67 Score=30.06 Aligned_cols=94 Identities=20% Similarity=0.268 Sum_probs=60.9
Q ss_pred ccccccCCCCcceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEecC---------------ccHHHHHH
Q psy15857 287 DADYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHD---------------PEFKVIQN 351 (455)
Q Consensus 287 ~~~~Y~m~~~~rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d---------------~~~~~i~~ 351 (455)
++-.|++. .|+-.++||.+=+.-..|.++......=++.+.+.|+.|||++....+ +..+.|..
T Consensus 37 pgli~Rl~-~Pk~t~lIF~SGKiv~tGaks~~~a~~a~~~~~~~L~~~g~~~~~~~~~~i~NIVas~~l~~~i~L~~la~ 115 (174)
T cd04518 37 PGLVYRLE-DPKIAALIFRSGKMVCTGAKSVEDLHRAVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNLDAIAI 115 (174)
T ss_pred cEEEEEcc-CCcEEEEEECCCeEEEEccCCHHHHHHHHHHHHHHHHhcCCCccCCCceEEEEEEEEEEcCCccCHHHHHh
Confidence 34557885 678999999999988767777766677788899999999977642222 44455544
Q ss_pred HhhcCCCccccccc-ccccccCCCCcccEEEEEEe
Q psy15857 352 AIDEGPVAKSTVEK-DADYYRMDHKHRGLALIFNH 385 (455)
Q Consensus 352 ~l~k~~~~~s~~~~-~~~~Y~m~~~~~g~~lIin~ 385 (455)
.+. ...++++. +--.|++. .++-.++||..
T Consensus 116 ~~~---~~~YePe~fpglvyR~~-~pk~~~lIF~S 146 (174)
T cd04518 116 GLP---NAEYEPEQFPGLVYRLD-EPKVVLLLFSS 146 (174)
T ss_pred hCC---CCccCcccCceEEEEec-CCcEEEEEeCC
Confidence 333 23333432 23456665 46666666643
No 57
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.49 E-value=2.2e+02 Score=28.92 Aligned_cols=72 Identities=11% Similarity=0.085 Sum_probs=51.6
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.++++|+|.- .++..+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+.+++-+-
T Consensus 31 ~~P~LaiI~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~e~~l~~~I~~lN~d--~~V~GIlvqlP 99 (294)
T PRK14187 31 LFPCLIVILV---------GDDPASQLYVRNKQRKAEMLGLRSETILLPSTISESSLIEKINELNND--DSVHGILVQLP 99 (294)
T ss_pred CCCeEEEEEe---------CCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCC
Confidence 3468888864 345678888999999999999998766 467889999999888743 23445554433
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|-.+.
T Consensus 100 LP~~i~~~ 107 (294)
T PRK14187 100 VPNHIDKN 107 (294)
T ss_pred CCCCCCHH
Confidence 566643
No 58
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.48 E-value=2.2e+02 Score=28.89 Aligned_cols=71 Identities=14% Similarity=0.225 Sum_probs=51.4
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
+.++|+|.-. ++.++..-++...+..+++|++++.+ .+.|.+|+.+.|+++.+. ...+.+++-+-
T Consensus 32 ~P~LaiI~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~t~~el~~~I~~lN~D--~~V~GIlvqlPl 100 (284)
T PRK14193 32 TPGLGTVLVG---------DDPGSQAYVRGKHRDCAEVGITSIRRDLPADATQEELNAVIDELNAD--PACTGYIVQLPL 100 (284)
T ss_pred CceEEEEEeC---------CCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 4688888643 44568888999999999999998766 478999999999888753 23455555433
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|=.+.
T Consensus 101 P~~id~~ 107 (284)
T PRK14193 101 PKHLDEN 107 (284)
T ss_pred CCCCCHH
Confidence 566543
No 59
>PRK14182 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.10 E-value=1.8e+02 Score=29.38 Aligned_cols=72 Identities=8% Similarity=0.097 Sum_probs=51.9
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++|+|.- .++.++..-++.-.+.++++|+.++.++ |.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 29 ~~P~LaiI~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~t~~~l~~~I~~lN~d--~~V~GIivqlP 97 (282)
T PRK14182 29 VQTGLTVVRV---------GDDPASAIYVRGKRKDCEEVGITSVEHHLPATTTQAELLALIARLNAD--PAVHGILVQLP 97 (282)
T ss_pred CCCeEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCC
Confidence 3468888854 3455688889999999999999987764 78999999999888753 33455555433
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|=.+.
T Consensus 98 Lp~~i~~~ 105 (282)
T PRK14182 98 LPKHVDER 105 (282)
T ss_pred CCCCCCHH
Confidence 566643
No 60
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.85 E-value=2.2e+02 Score=28.81 Aligned_cols=71 Identities=10% Similarity=0.077 Sum_probs=50.7
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.-+ +...+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. .+.+-+++-+-
T Consensus 33 ~P~Laii~vg---------~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~s~~el~~~I~~lN~D--~~V~GIlvqlPL 101 (284)
T PRK14177 33 IPKLATILVG---------NNPASETYVSMKVKACHKVGMGSEMIRLKEQTTTEELLGVIDKLNLD--PNVDGILLQHPV 101 (284)
T ss_pred CCeEEEEEeC---------CChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEcCCC
Confidence 3578888643 34568888999999999999998875 578999999999888753 23444444332
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|-.+.
T Consensus 102 p~~i~~~ 108 (284)
T PRK14177 102 PSQIDER 108 (284)
T ss_pred CCCCCHH
Confidence 466543
No 61
>PRK14181 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.00 E-value=2.1e+02 Score=29.10 Aligned_cols=70 Identities=16% Similarity=0.209 Sum_probs=51.2
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
+.++|+|.- .++..+..-++.-.+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+-+++-+-
T Consensus 26 ~P~LaiI~v---------g~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~t~~el~~~I~~lN~d--~~V~GIlvqlPl 94 (287)
T PRK14181 26 APGLAVVLI---------GNDPASEVYVGMKVKKATDLGMVSKAHRLPSDATLSDILKLIHRLNND--PNIHGILVQLPL 94 (287)
T ss_pred CCcEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEcCCC
Confidence 568888854 345568888999999999999998766 478999999999998743 23455555433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 95 P~~i~~ 100 (287)
T PRK14181 95 PKHLDA 100 (287)
T ss_pred CCCcCH
Confidence 45554
No 62
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=28.81 E-value=3.7e+02 Score=22.99 Aligned_cols=81 Identities=16% Similarity=0.159 Sum_probs=47.2
Q ss_pred HHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCCceeeeeCCccChhhhHHhhccccccc
Q psy15857 50 FENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGEDGILHAKDVPYKPKNLWSKFTADNCLT 129 (455)
Q Consensus 50 ~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~g~I~g~D~~v~~~~I~~~F~~~~c~~ 129 (455)
.+.+...|+..++.+.++.=.. .+..+.+......+.. .|.++ +.|-|| .+.++++.+.....+
T Consensus 17 ~~~v~~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~-~~~iv-----------v~GGDG--Tl~~vv~~l~~~~~~- 80 (130)
T PF00781_consen 17 WKKVEPALRAAGIDYEVIETES-AGHAEALARILALDDY-PDVIV-----------VVGGDG--TLNEVVNGLMGSDRE- 80 (130)
T ss_dssp HHHHHHHHHHTTCEEEEEEESS-TTHHHHHHHHHHHTTS--SEEE-----------EEESHH--HHHHHHHHHCTSTSS-
T ss_pred HHHHHHHHHHcCCceEEEEEec-cchHHHHHHHHhhccC-ccEEE-----------EEcCcc--HHHHHHHHHhhcCCC-
Confidence 5899999999999887765444 4555555553332211 13222 346688 566777777654222
Q ss_pred cCCCceEEEEecccCCccC
Q psy15857 130 LAGKPKLFFIQACQGDKLD 148 (455)
Q Consensus 130 L~gKPKlFfiQACRG~~~d 148 (455)
.+|.+-+|.+.-|+.+.
T Consensus 81 --~~~~l~iiP~GT~N~~a 97 (130)
T PF00781_consen 81 --DKPPLGIIPAGTGNDFA 97 (130)
T ss_dssp --S--EEEEEE-SSS-HHH
T ss_pred --ccceEEEecCCChhHHH
Confidence 28899999987777544
No 63
>PRK14191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.57 E-value=2.4e+02 Score=28.56 Aligned_cols=71 Identities=10% Similarity=0.090 Sum_probs=50.8
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++++|.- .++..+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. ...+.+++-+-
T Consensus 31 ~P~LaiI~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvq~Pl 99 (285)
T PRK14191 31 RPKLAVILV---------GKDPASQTYVNMKIKACERVGMDSDLHTLQENTTEAELLSLIKDLNTD--QNIDGILVQLPL 99 (285)
T ss_pred CCeEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 458888854 345568888999999999999998766 478889999999888753 23444444432
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|=.+.
T Consensus 100 P~~i~~~ 106 (285)
T PRK14191 100 PRHIDTK 106 (285)
T ss_pred CCCCCHH
Confidence 466643
No 64
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.56 E-value=2.5e+02 Score=28.36 Aligned_cols=72 Identities=10% Similarity=0.039 Sum_probs=51.2
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++|+|.-. ++.++..-++.-.+..+++|++++.+ .+.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 25 ~~P~Laii~vg---------~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIlvqlP 93 (279)
T PRK14178 25 LYPRLATVIVG---------DDPASQMYVRMKHRACERVGIGSVGIELPGDATTRTVLERIRRLNED--PDINGILVQLP 93 (279)
T ss_pred CCCeEEEEEeC---------CChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEcCC
Confidence 34588888643 45568888999999999999998765 588999999999888753 23445554433
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|=.+.
T Consensus 94 Lp~~i~~~ 101 (279)
T PRK14178 94 LPKGVDTE 101 (279)
T ss_pred CCCCCCHH
Confidence 455543
No 65
>PRK14183 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.28 E-value=2.3e+02 Score=28.68 Aligned_cols=72 Identities=14% Similarity=0.094 Sum_probs=51.2
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
...++|+|.- .++..+..-++...+..+++|+.++.++ +.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 30 ~~P~Laii~v---------gdd~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~~l~~~I~~lN~D--~~V~GIlvq~P 98 (281)
T PRK14183 30 IVPGLAVILV---------GDDPASHTYVKMKAKACDRVGIYSITHEMPSTISQKEILETIAMMNNN--PNIDGILVQLP 98 (281)
T ss_pred CCCeEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CccCeEEEeCC
Confidence 3568888854 3455688889999999999999987664 78889999999888742 23445444432
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|=.+.
T Consensus 99 lP~~i~~~ 106 (281)
T PRK14183 99 LPKHIDTT 106 (281)
T ss_pred CCCCCCHH
Confidence 466543
No 66
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=27.29 E-value=2.6e+02 Score=30.33 Aligned_cols=105 Identities=10% Similarity=0.061 Sum_probs=56.9
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHh-HHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecC
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGAD-FENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTH 100 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D-~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSH 100 (455)
+|+.+.+|+|- ...+-.+.+- .+.++.+|++.|+++.+..--...+..+.++++. ...+|.+|+
T Consensus 110 ~~kr~lvIvNP-------~SGkg~a~k~~~~~v~~~L~~~gi~~~v~~T~~~ghA~~la~~~~---~~~~D~VV~----- 174 (481)
T PLN02958 110 RPKRLLVFVNP-------FGGKKSASKIFFDVVKPLLEDADIQLTIQETKYQLHAKEVVRTMD---LSKYDGIVC----- 174 (481)
T ss_pred CCcEEEEEEcC-------CCCCcchhHHHHHHHHHHHHHcCCeEEEEeccCccHHHHHHHHhh---hcCCCEEEE-----
Confidence 56677777763 2221112232 3468889999999988776555556666665553 234565443
Q ss_pred CCCceeeeeCCccChhhhHHhhccccccccCCCceEEEEecccCCccCC
Q psy15857 101 GEDGILHAKDVPYKPKNLWSKFTADNCLTLAGKPKLFFIQACQGDKLDA 149 (455)
Q Consensus 101 G~~g~I~g~D~~v~~~~I~~~F~~~~c~~L~gKPKlFfiQACRG~~~d~ 149 (455)
.|-|| .+.++++-+....=..-..++.|=+|.|=-|+.+-.
T Consensus 175 ------vGGDG--TlnEVvNGL~~~~~~~~~~~~pLGiIPaGTgNdfAr 215 (481)
T PLN02958 175 ------VSGDG--ILVEVVNGLLEREDWKTAIKLPIGMVPAGTGNGMAK 215 (481)
T ss_pred ------EcCCC--HHHHHHHHHhhCccccccccCceEEecCcCcchhhh
Confidence 24566 445555544311000001246688888766665443
No 67
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=26.95 E-value=1.1e+02 Score=27.14 Aligned_cols=47 Identities=15% Similarity=0.195 Sum_probs=31.3
Q ss_pred HHHHHHHHHhcCCeEEEecCC--CHHHHHHHHHh-cCCcEEEEEEecccC
Q psy15857 403 FENLYTTLVNLGFVVKPYHDP--EFKVIQNAIDE-GKDALIPSLFLPHSN 449 (455)
Q Consensus 403 ~e~L~~~F~~LgF~V~~~~dl--t~~eI~~~l~~-~~~~cfv~~ilSHG~ 449 (455)
.+.+.+.++.++++|.+...- ...-|.+.|.+ ...++|+++|||-=+
T Consensus 13 ~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD 62 (125)
T PF10137_consen 13 AEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDD 62 (125)
T ss_pred HHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccc
Confidence 355788888899998766422 12445555555 566788888888543
No 68
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.76 E-value=2.4e+02 Score=28.43 Aligned_cols=70 Identities=16% Similarity=0.163 Sum_probs=50.1
Q ss_pred eeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe--
Q psy15857 24 RGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL-- 98 (455)
Q Consensus 24 ~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil-- 98 (455)
.++++|.-+ ++..+..-++...+.++++|+.++.+ .+.|.+|+.+.|+++.+. .+.+.+++-+-
T Consensus 33 P~Laii~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~d--~~V~GIlvqlPLP 101 (278)
T PRK14172 33 PKIASILVG---------NDGGSIYYMNNQEKVANSLGIDFKKIKLDESISEEDLINEIEELNKD--NNVHGIMLQLPLP 101 (278)
T ss_pred ceEEEEEeC---------CCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEcCCCC
Confidence 588888643 44567888899999999999998766 478999999999888753 23444444432
Q ss_pred cCCCCc
Q psy15857 99 THGEDG 104 (455)
Q Consensus 99 SHG~~g 104 (455)
.|=.+.
T Consensus 102 ~~~~~~ 107 (278)
T PRK14172 102 KHLDEK 107 (278)
T ss_pred CCCCHH
Confidence 565543
No 69
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.28 E-value=2.8e+02 Score=28.08 Aligned_cols=70 Identities=10% Similarity=0.089 Sum_probs=50.5
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++++|.-+ ++..+..-++...+..+++|+.++.+ .+.|.+|+.+.|+++.+. ...+.+++-+-
T Consensus 30 ~P~Laii~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~t~~~l~~~I~~lN~D--~~V~GIivq~PL 98 (282)
T PRK14166 30 ESCLAVILVG---------DNPASQTYVKSKAKACEECGIKSLVYHLNENTTQNELLALINTLNHD--DSVHGILVQLPL 98 (282)
T ss_pred CceEEEEEeC---------CCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 4578888543 45568888999999999999997766 578999999999888742 23455554433
Q ss_pred -cCCCC
Q psy15857 99 -THGED 103 (455)
Q Consensus 99 -SHG~~ 103 (455)
.|=.+
T Consensus 99 P~~i~~ 104 (282)
T PRK14166 99 PDHICK 104 (282)
T ss_pred CCCCCH
Confidence 45554
No 70
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=26.07 E-value=99 Score=27.35 Aligned_cols=83 Identities=18% Similarity=0.315 Sum_probs=46.2
Q ss_pred HHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCCceeeeeCC--c--cChhhhHH--hhc
Q psy15857 50 FENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGEDGILHAKDV--P--YKPKNLWS--KFT 123 (455)
Q Consensus 50 ~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~g~I~g~D~--~--v~~~~I~~--~F~ 123 (455)
++.++..++.+|+++.+..... ..-...+.++.+. .+-.+|++++++-=+.+..-+.+. + ..-+-|++ +|.
T Consensus 13 ~~~v~~~L~~~~~ep~i~~~~~-~~g~tiie~le~~--~~~~~faIvl~TpDD~~~~~~~~~~~~~~aR~NVifE~G~f~ 89 (125)
T PF10137_consen 13 AEAVERFLEKLGLEPIIWHEQP-NLGQTIIEKLEEA--ADSVDFAIVLFTPDDIGYSRGEEEDLQPRARQNVIFELGLFI 89 (125)
T ss_pred HHHHHHHHHhCCCceEEeecCC-CCCCchHHHHHHH--hccCCEEEEEEcccccccccCCccccccccccceeehhhHHH
Confidence 4568889999999999887543 2223344444332 112357888887655554443332 1 11111222 343
Q ss_pred cccccccCCCceEEEEe
Q psy15857 124 ADNCLTLAGKPKLFFIQ 140 (455)
Q Consensus 124 ~~~c~~L~gKPKlFfiQ 140 (455)
+ ..|+-+.|++.
T Consensus 90 g-----~LGr~rv~~l~ 101 (125)
T PF10137_consen 90 G-----KLGRERVFILV 101 (125)
T ss_pred h-----hcCcceEEEEE
Confidence 3 35777888887
No 71
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=26.05 E-value=4e+02 Score=23.19 Aligned_cols=78 Identities=15% Similarity=0.070 Sum_probs=53.1
Q ss_pred CCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCC---c-eeeeeCCc-cC
Q psy15857 40 LKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGED---G-ILHAKDVP-YK 114 (455)
Q Consensus 40 l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~---g-~I~g~D~~-v~ 114 (455)
...|..+..=++.+.+.|...|++|....-.+.-.+.-.++.+ ++++-+++-.||-.. | .++..+|. ++
T Consensus 47 ~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~tP~~~~~~~~~------~~~ggi~iTaShnp~~~ngik~~~~~G~~~~ 120 (137)
T PF02878_consen 47 RDTRPSSPMLAKALAAGLRANGVDVIDIGLVPTPALSFAIRQL------NADGGIMITASHNPPGYNGIKFFDANGGPIS 120 (137)
T ss_dssp E-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-HHHHHHHHHHH------TESEEEEE--TTS-TTEEEEEEEETTSSB--
T ss_pred EcccCCHHHHHHHHHHHHhhcccccccccccCcHHhhhhcccc------ccceeeEEEecCCCCCcceEEEEeCCCCcCC
Confidence 4678889999999999999999999988866766766665442 267899999999653 3 56778873 43
Q ss_pred ---hhhhHHhhc
Q psy15857 115 ---PKNLWSKFT 123 (455)
Q Consensus 115 ---~~~I~~~F~ 123 (455)
...|.+.+.
T Consensus 121 ~~~~~~I~~~~~ 132 (137)
T PF02878_consen 121 PEEERKIEQIIE 132 (137)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 334555543
No 72
>KOG1321|consensus
Probab=25.96 E-value=4.4e+02 Score=27.41 Aligned_cols=111 Identities=19% Similarity=0.190 Sum_probs=71.5
Q ss_pred CCCCCCCChHhHHHHHHHHhhcC--------CEEEEecC-ccHHHHHHHhhcCCCcccccccccccccCCCCcccEEEEE
Q psy15857 313 HLKSRAGTGADFENLYTTLVNLG--------FVVKPYHD-PEFKVIQNAIDEGPVAKSTVEKDADYYRMDHKHRGLALIF 383 (455)
Q Consensus 313 ~l~~R~Gt~~D~~~l~~~~~~Lg--------f~V~~~~d-~~~~~i~~~l~k~~~~~s~~~~~~~~Y~m~~~~~g~~lIi 383 (455)
+-|=|.=|+.-++.+.++|.... |---.|-. ||.+.+. .|++ +...| ++.|
T Consensus 101 GSPir~wT~~Q~~~m~k~Ld~~~petaphk~YVgfRY~~PlTEea~~-qikk-----------------d~v~r--~Vaf 160 (395)
T KOG1321|consen 101 GSPIRKWTEYQAEEMCKILDKKCPETAPHKPYVGFRYAHPLTEEALE-QIKK-----------------DGVTR--AVAF 160 (395)
T ss_pred CCchhHHHHHHHHHHHHHHHhcCcccCCccceeeeeecCcccHHHHH-HHHh-----------------cCcee--EEee
Confidence 67779999999999999998776 32223444 5555544 4442 32323 5555
Q ss_pred Eec-cCCCCCCCCCCCcHHhHHHHHHHHHhcCCeE-----EEecCCCHH--------HHHHHHHh---cCCcEEEEEEec
Q psy15857 384 NHE-HFDSPHLKSRAGTGADFENLYTTLVNLGFVV-----KPYHDPEFK--------VIQNAIDE---GKDALIPSLFLP 446 (455)
Q Consensus 384 n~~-~F~~~~l~~R~Gs~~D~e~L~~~F~~LgF~V-----~~~~dlt~~--------eI~~~l~~---~~~~cfv~~ilS 446 (455)
.+. +| -..+.|+ ....|.+.|+..|+.+ .+-.-+|.+ -|++.|++ ..++-.|+++..
T Consensus 161 sqYPQy----S~sTsGS--Sln~l~r~~r~~~~~~~~~wsiIdrW~t~~glIkafA~~I~keL~~F~~~~r~~VVIlFSA 234 (395)
T KOG1321|consen 161 SQYPQY----SCSTSGS--SLNELWRQFREDGYERDIKWSIIDRWPTREGLIKAFAENIEKELQTFPEPVRDDVVILFSA 234 (395)
T ss_pred ccCCce----eeecCcc--cHHHHHHHHHhcCcccCCceEeeccccccchHHHHHHHHHHHHHHhcCCcccccEEEEEec
Confidence 443 22 1457777 5678999999999875 333566664 45555555 345667889999
Q ss_pred ccC
Q psy15857 447 HSN 449 (455)
Q Consensus 447 HG~ 449 (455)
||.
T Consensus 235 Hsl 237 (395)
T KOG1321|consen 235 HSL 237 (395)
T ss_pred CCC
Confidence 985
No 73
>PRK14175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.95 E-value=2.8e+02 Score=28.15 Aligned_cols=71 Identities=7% Similarity=0.110 Sum_probs=50.0
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++++|.- .++..+..-++.-.+..+++|+.++.+ .+.|.+|+.+.|+++.+- ...+-+++-+-
T Consensus 31 ~~p~Laii~v---------g~~~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~~l~~~I~~lN~d--~~V~GIivq~P 99 (286)
T PRK14175 31 FTPKLSVILV---------GNDGASQSYVRSKKKAAEKIGMISEIVHLEETATEEEVLNELNRLNND--DSVSGILVQVP 99 (286)
T ss_pred CCCeEEEEEe---------CCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCC
Confidence 3468888853 345568888999999999999998766 478899999999888742 23444444432
Q ss_pred --cCCCC
Q psy15857 99 --THGED 103 (455)
Q Consensus 99 --SHG~~ 103 (455)
.|=.+
T Consensus 100 lp~~i~~ 106 (286)
T PRK14175 100 LPKQVSE 106 (286)
T ss_pred CCCCCCH
Confidence 34443
No 74
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.68 E-value=2.8e+02 Score=28.26 Aligned_cols=71 Identities=13% Similarity=0.143 Sum_probs=51.0
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe-
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL- 98 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil- 98 (455)
..++|+|.-+ ++..+..-++...+.++++|++++.+ .+.|.+|+.+.|+++.+. ...+-+++-+-
T Consensus 32 ~p~LaiI~vg---------dd~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIivq~PL 100 (297)
T PRK14186 32 PPGLAVLRVG---------DDPASAVYVRNKEKACARVGIASFGKHLPADTSQAEVEALIAQLNQD--ERVDGILLQLPL 100 (297)
T ss_pred CceEEEEEeC---------CChHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCEEEEeCCC
Confidence 4578888543 44568888999999999999998755 578999999999888753 23445554433
Q ss_pred -cCCCCc
Q psy15857 99 -THGEDG 104 (455)
Q Consensus 99 -SHG~~g 104 (455)
.|-.+.
T Consensus 101 P~~i~~~ 107 (297)
T PRK14186 101 PKHLDEV 107 (297)
T ss_pred CCCCCHH
Confidence 566643
No 75
>PF06866 DUF1256: Protein of unknown function (DUF1256); InterPro: IPR009665 This family consists of several uncharacterised bacterial proteins, which seem to be specific to the orders Clostridia and Bacillales. Family members are typically around 180 residues in length. The function of this family is unknown.
Probab=25.67 E-value=4.5e+02 Score=24.47 Aligned_cols=96 Identities=15% Similarity=0.215 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHhhcCCCCceEEEEEecCCCCc-------------------eeeee-CCccC---hhhhHHhhccccccc
Q psy15857 73 KVIQNAIDEAAEQDYTDADCFVMAVLTHGEDG-------------------ILHAK-DVPYK---PKNLWSKFTADNCLT 129 (455)
Q Consensus 73 ~em~~~l~~~s~~d~~~~d~~vvvilSHG~~g-------------------~I~g~-D~~v~---~~~I~~~F~~~~c~~ 129 (455)
+++.+.|.+..... .-+.+++||=+--..| .|||+ |.+|. +.+.++... .
T Consensus 10 ~~l~~~L~~~~~~~--~~~iv~lCIGTDRstGDsLGPLVGt~L~~~~~~~~~VyGTL~~PVHA~NL~e~l~~I~-----~ 82 (163)
T PF06866_consen 10 EKLANFLYSLIPKH--NREIVFLCIGTDRSTGDSLGPLVGTKLKEMGFPNFNVYGTLDEPVHALNLEETLNEIK-----K 82 (163)
T ss_pred HHHHHHHHHHHhhc--CCCEEEEEECCCCCccccccchhhHHHHhcCCCCceEEECCCCCcchhhHHHHHHHHH-----H
Confidence 34555555444332 4467888885443221 46775 45554 444444443 2
Q ss_pred cCCCceEEEEecccCCccCCCceee---eccCCCCCCCcCCCCCCCEEEE
Q psy15857 130 LAGKPKLFFIQACQGDKLDAGVTIR---TQVDGHPSNTYSIPLHADFLMA 176 (455)
Q Consensus 130 L~gKPKlFfiQACRG~~~d~gv~~~---~~~d~~~~~~~~iP~~aD~Li~ 176 (455)
....|-++-|+||=|....-|.-.. +-.+|. .....+|.-.|+-|.
T Consensus 83 ~~~~~~IIAIDAcLG~~~~vG~I~~~~gpl~PG~-gv~K~LP~VGd~sIt 131 (163)
T PF06866_consen 83 KHPNPFIIAIDACLGRPDNVGYITLGNGPLKPGA-GVGKKLPPVGDISIT 131 (163)
T ss_pred HCCCCeEEEEECCCCCcccceEEEEcCCCCCCch-hhCCCCCCCcCEEEE
Confidence 3467999999999999876554321 111221 234577877786554
No 76
>PRK14170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.77 E-value=2.9e+02 Score=27.98 Aligned_cols=71 Identities=13% Similarity=0.157 Sum_probs=51.1
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.+.++|+|.-+ ++..+..-++.-.+..+++|+.++.+ .+.|.+|+.+.|+++..- ...+-+++-+-
T Consensus 30 ~~P~Laii~vg---------~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~D--~~V~GIivqlP 98 (284)
T PRK14170 30 KKPGLAVVLVG---------DNQASRTYVRNKQKRTEEAGMKSVLIELPENVTEEKLLSVVEELNED--KTIHGILVQLP 98 (284)
T ss_pred CCCeEEEEEeC---------CCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCC--CCCCeEEEecC
Confidence 34588888643 45568888899999999999998766 478889999999888753 23455555443
Q ss_pred --cCCCC
Q psy15857 99 --THGED 103 (455)
Q Consensus 99 --SHG~~ 103 (455)
.|=.+
T Consensus 99 lP~~i~~ 105 (284)
T PRK14170 99 LPEHISE 105 (284)
T ss_pred CCCCCCH
Confidence 56654
No 77
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=23.86 E-value=3.1e+02 Score=28.02 Aligned_cols=72 Identities=13% Similarity=0.112 Sum_probs=52.3
Q ss_pred CceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEe---cCCCHHHHHHHHHHHHhhcCCCCceEEEEEe
Q psy15857 22 KHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPY---HDPEFKVIQNAIDEAAEQDYTDADCFVMAVL 98 (455)
Q Consensus 22 ~~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~---~nlt~~em~~~l~~~s~~d~~~~d~~vvvil 98 (455)
.++++|+|.- .++..+..-++.-.+..+++|+..+.+ .+.|.+|+.+.|+++-+. ...+-+++-+-
T Consensus 32 ~~P~LaiI~v---------g~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~t~~~l~~~I~~lN~D--~~V~GIlvqlP 100 (301)
T PRK14194 32 IEPALAVILV---------GNDPASQVYVRNKILRAEEAGIRSLEHRLPADTSQARLLALIAELNAD--PSVNGILLQLP 100 (301)
T ss_pred CCCeEEEEEe---------CCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHcCC--CCCCeEEEeCC
Confidence 3568888864 345568888999999999999998665 478999999999887643 33455555543
Q ss_pred --cCCCCc
Q psy15857 99 --THGEDG 104 (455)
Q Consensus 99 --SHG~~g 104 (455)
.|-.+.
T Consensus 101 LP~~i~~~ 108 (301)
T PRK14194 101 LPAHIDEA 108 (301)
T ss_pred CCCCCCHH
Confidence 576653
No 78
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=23.66 E-value=1.9e+02 Score=28.81 Aligned_cols=56 Identities=16% Similarity=0.105 Sum_probs=39.0
Q ss_pred CCCCCCCcHHhHHHHHHHHHhcCCeEEEecCCCHHHHHHHHHhcCCc-EEEEEEecccCCC
Q psy15857 392 HLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEGKDA-LIPSLFLPHSNKA 451 (455)
Q Consensus 392 ~l~~R~Gs~~D~e~L~~~F~~LgF~V~~~~dlt~~eI~~~l~~~~~~-cfv~~ilSHG~~~ 451 (455)
.-..|.-+.....++.+.++.+||+|... ++...++...|....-| +|. + + ||..+
T Consensus 13 ~s~e~~vsl~s~~~v~~aL~~~g~~~~~~-~~~~~~~~~~l~~~~~d~vf~-~-l-hG~~g 69 (296)
T PRK14569 13 DSPEREVSLKSGKAVLDSLISQGYDAVGV-DASGKELVAKLLELKPDKCFV-A-L-HGEDG 69 (296)
T ss_pred CCCchHhHHHHHHHHHHHHHHcCCEEEEE-cCCchhHHHHhhccCCCEEEE-e-C-CCCCC
Confidence 34678999999999999999999998666 45545555556654444 333 2 2 98644
No 79
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=23.53 E-value=2.3e+02 Score=25.35 Aligned_cols=78 Identities=18% Similarity=0.183 Sum_probs=46.8
Q ss_pred hHHHHHHHHhhcCCEEEEecCccHHHHHHHhhcCCCcccccccccccccCCCCcccEEEEEEeccCCCCCCCCCCCcHHh
Q psy15857 323 DFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEGPVAKSTVEKDADYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGAD 402 (455)
Q Consensus 323 D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k~~~~~s~~~~~~~~Y~m~~~~~g~~lIin~~~F~~~~l~~R~Gs~~D 402 (455)
....|.+-|+.|||+|....+..-.+|...-..-+ -.....+...++.-....+ ++.+.. +.-
T Consensus 8 ~L~~Lar~LR~lG~Dt~~~~~~~D~~il~~A~~e~--RillTrd~~l~~~~~~~~~-~~li~~--------------~~~ 70 (147)
T PF01927_consen 8 MLGRLARWLRLLGYDTLYSRDIDDDEILELAREEG--RILLTRDRDLLKRRRVSGG-VILIRS--------------DDP 70 (147)
T ss_pred CHHHHHHHHHHCCCcEEEeCCCChHHHHHHhhhCC--eEEEECCHHHHHHhhccCC-EEEEcC--------------CCH
Confidence 35779999999999999999998898887643211 0011223333333322223 223211 114
Q ss_pred HHHHHHHHHhcCCeE
Q psy15857 403 FENLYTTLVNLGFVV 417 (455)
Q Consensus 403 ~e~L~~~F~~LgF~V 417 (455)
.+.|..+++.++-.+
T Consensus 71 ~~QL~ev~~~~~l~~ 85 (147)
T PF01927_consen 71 EEQLREVLERFGLKL 85 (147)
T ss_pred HHHHHHHHHHcCCcc
Confidence 577888888887655
No 80
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=23.47 E-value=86 Score=24.44 Aligned_cols=25 Identities=28% Similarity=0.355 Sum_probs=16.9
Q ss_pred CCChHHhHHHHHHHHHhCCcEEEEe
Q psy15857 43 RAGTGADFENLYTTLVNLGFVVKPY 67 (455)
Q Consensus 43 R~Gs~~D~~~L~~~F~~LGF~V~~~ 67 (455)
..|..-..+.+.+.|+.|||++...
T Consensus 14 ~lG~~i~~~~i~~~L~~lg~~~~~~ 38 (70)
T PF03484_consen 14 LLGIDISPEEIIKILKRLGFKVEKI 38 (70)
T ss_dssp HHTS---HHHHHHHHHHTT-EEEE-
T ss_pred HhCCCCCHHHHHHHHHHCCCEEEEC
Confidence 3567788899999999999998874
No 81
>cd02001 TPP_ComE_PpyrDC Thiamine pyrophosphate (TPP) family, ComE and PpyrDC subfamily, TPP-binding module; composed of proteins similar to sulfopyruvate decarboxylase beta subunit (ComE) and phosphonopyruvate decarboxylase (Ppyr decarboxylase). Methanococcus jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six alpha (D) subunits and six (E) beta subunits which, catalyzes the decarboxylation of sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M pathway. Ppyr decarboxylase is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus. Ppyr decarboxylase and ComDE require TPP and divalent metal cation cofactors.
Probab=23.33 E-value=3.1e+02 Score=24.77 Aligned_cols=55 Identities=9% Similarity=0.202 Sum_probs=32.7
Q ss_pred eEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh
Q psy15857 25 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 25 G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~ 84 (455)
=+.+|+||..|.......-..+..|...|.+. +|+..... -+.+|+.+.|++...
T Consensus 89 i~~vV~nN~~~g~~~~~~~~~~~~d~~~lA~a---~G~~~~~v--~~~~el~~al~~a~~ 143 (157)
T cd02001 89 LILVVLDNRAYGSTGGQPTPSSNVNLEAWAAA---CGYLVLSA--PLLGGLGSEFAGLLA 143 (157)
T ss_pred EEEEEEeCccccccCCcCCCCCCCCHHHHHHH---CCCceEEc--CCHHHHHHHHHHHHh
Confidence 45677799987642111111224565555555 56664433 358999999988865
No 82
>COG3959 Transketolase, N-terminal subunit [Carbohydrate transport and metabolism]
Probab=22.68 E-value=2.5e+02 Score=27.66 Aligned_cols=42 Identities=19% Similarity=0.260 Sum_probs=33.4
Q ss_pred CChHHh---HHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhh
Q psy15857 44 AGTGAD---FENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQ 85 (455)
Q Consensus 44 ~Gs~~D---~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~ 85 (455)
+|.-.| .+-|..-|+.+||+|....--..++|.+++.+....
T Consensus 185 dG~t~~i~~~~pL~~k~eAFGw~V~evdG~d~~~i~~a~~~~~~~ 229 (243)
T COG3959 185 DGETEEIMPKEPLADKWEAFGWEVIEVDGHDIEEIVEALEKAKGS 229 (243)
T ss_pred CCchhhccCcchhHHHHHhcCceEEEEcCcCHHHHHHHHHhhhcc
Confidence 444444 556889999999999998888888999888887653
No 83
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=22.11 E-value=2.6e+02 Score=25.48 Aligned_cols=53 Identities=17% Similarity=0.034 Sum_probs=38.4
Q ss_pred CCCcHHhHHHHHHHHHhcCCeEEEec-CCCHHHHHHHHHhcCCcEEEEEEeccc
Q psy15857 396 RAGTGADFENLYTTLVNLGFVVKPYH-DPEFKVIQNAIDEGKDALIPSLFLPHS 448 (455)
Q Consensus 396 R~Gs~~D~e~L~~~F~~LgF~V~~~~-dlt~~eI~~~l~~~~~~cfv~~ilSHG 448 (455)
-+|-+.=.+-+.+.|+..||+|..-. .-|.+|+.....+.+.+-++++.++=|
T Consensus 22 lDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~~dv~vIgvSsl~g~ 75 (143)
T COG2185 22 LDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAVEEDVDVIGVSSLDGG 75 (143)
T ss_pred ccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHhcCCCEEEEEeccch
Confidence 34555566788999999999997765 556677777776677777776766543
No 84
>cd00568 TPP_enzymes Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and the branched chain alpha-keto acid dehydrogenase complexes.
Probab=22.03 E-value=1.5e+02 Score=26.19 Aligned_cols=59 Identities=14% Similarity=0.137 Sum_probs=35.1
Q ss_pred eeEEEEEeCCCCCCCC-C------CCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh
Q psy15857 24 RGLALIFNHEHFDSPH-L------KSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 24 ~G~aLIInN~~F~~~~-l------~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~ 84 (455)
.=+.+|+||..+.... . ..+.+.......+.++++.+|++...-. +.+|+.+.+++..+
T Consensus 92 ~~~~iv~nN~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~a~~~G~~~~~v~--~~~~l~~a~~~a~~ 157 (168)
T cd00568 92 PVIVVVFNNGGYGTIRMHQEAFYGGRVSGTDLSNPDFAALAEAYGAKGVRVE--DPEDLEAALAEALA 157 (168)
T ss_pred CcEEEEEECCccHHHHHHHHHHcCCCcccccCCCCCHHHHHHHCCCeEEEEC--CHHHHHHHHHHHHh
Confidence 3457777888765310 0 1111222222357778888899876554 37888888888763
No 85
>COG3580 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.02 E-value=1.2e+02 Score=31.26 Aligned_cols=41 Identities=22% Similarity=0.203 Sum_probs=27.9
Q ss_pred HHHHHhcCCeEEEecCCCHHHHHHHHHh--cCCcEEEEEEecccC
Q psy15857 407 YTTLVNLGFVVKPYHDPEFKVIQNAIDE--GKDALIPSLFLPHSN 449 (455)
Q Consensus 407 ~~~F~~LgF~V~~~~dlt~~eI~~~l~~--~~~~cfv~~ilSHG~ 449 (455)
...|+.|||+|.+ ..-+.++|.+.=.+ ..+-||. +=||||-
T Consensus 40 ~tffteLGf~VVl-S~~S~kely~~G~~ti~sevCfP-aki~HGH 82 (351)
T COG3580 40 HTFFTELGFRVVL-SPKSSKELYEKGIETIPSEVCFP-AKISHGH 82 (351)
T ss_pred HHHHHHcCceEEe-CCCCcHHHHHhhhhhCCccceec-eeechhH
Confidence 3678999999755 44555555544333 3347999 8899984
No 86
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=21.91 E-value=2.6e+02 Score=23.43 Aligned_cols=41 Identities=15% Similarity=0.158 Sum_probs=32.3
Q ss_pred hHHhHHHHHHHHHhCCcEEEEe--------------cCCCHHHHHHHHHHHHhhc
Q psy15857 46 TGADFENLYTTLVNLGFVVKPY--------------HDPEFKVIQNAIDEAAEQD 86 (455)
Q Consensus 46 s~~D~~~L~~~F~~LGF~V~~~--------------~nlt~~em~~~l~~~s~~d 86 (455)
...|.+.|...|...||++... .+.+.+++.+.|+++.+..
T Consensus 12 N~~Dse~i~~~l~~~G~~~~~~~e~AD~iiiNTC~V~~~Ae~k~~~~i~~l~~~~ 66 (98)
T PF00919_consen 12 NQYDSERIASILQAAGYEIVDDPEEADVIIINTCTVRESAEQKSRNRIRKLKKLK 66 (98)
T ss_pred cHHHHHHHHHHHHhcCCeeecccccCCEEEEEcCCCCcHHHHHHHHHHHHHHHhc
Confidence 3589999999999999986432 3566778888888888654
No 87
>PRK09004 FMN-binding protein MioC; Provisional
Probab=21.85 E-value=2e+02 Score=25.72 Aligned_cols=48 Identities=23% Similarity=0.447 Sum_probs=32.7
Q ss_pred CChHHh-HHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCC
Q psy15857 44 AGTGAD-FENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGED 103 (455)
Q Consensus 44 ~Gs~~D-~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~ 103 (455)
.|+-.. ++.|.+.++++|+.|.+..... +.+ ..+++-++++..++|.-
T Consensus 12 tGnae~~A~~l~~~~~~~g~~~~~~~~~~-------~~~-----l~~~~~li~~~sT~G~G 60 (146)
T PRK09004 12 LGGAEYVADHLAEKLEEAGFSTETLHGPL-------LDD-----LSASGLWLIVTSTHGAG 60 (146)
T ss_pred chHHHHHHHHHHHHHHHcCCceEEeccCC-------HHH-----hccCCeEEEEECCCCCC
Confidence 455444 6778899999999998864322 112 23457788888888753
No 88
>PRK14763 coenzyme PQQ biosynthesis protein A; Provisional
Probab=21.26 E-value=51 Score=21.11 Aligned_cols=10 Identities=40% Similarity=0.697 Sum_probs=8.2
Q ss_pred hcCCEEEEec
Q psy15857 333 NLGFVVKPYH 342 (455)
Q Consensus 333 ~Lgf~V~~~~ 342 (455)
+|||+|+.|-
T Consensus 11 R~GfEvTmYi 20 (26)
T PRK14763 11 RFGFEVTMYV 20 (26)
T ss_pred eeeeEEEEEE
Confidence 5899999873
No 89
>PF04577 DUF563: Protein of unknown function (DUF563); InterPro: IPR007657 This is a family of uncharacterised glycosyltransferases belonging to glycosyltransferase family 61. Sequences are further processed into a mature form.; GO: 0016757 transferase activity, transferring glycosyl groups
Probab=21.21 E-value=1.9e+02 Score=26.45 Aligned_cols=52 Identities=21% Similarity=0.218 Sum_probs=35.1
Q ss_pred hHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCCC--ceeeeeCC
Q psy15857 49 DFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGED--GILHAKDV 111 (455)
Q Consensus 49 D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~~--g~I~g~D~ 111 (455)
..+.|.+.|++.||++...++++..|.. +-|++- =++|..||.. +.++...+
T Consensus 120 Ne~el~~~l~~~~~~~v~~~~~s~~eqv---~~~~~a--------~viig~hGs~l~n~~F~~~~ 173 (206)
T PF04577_consen 120 NEDELLEILKKYGFEVVDPEDLSFEEQV---KLFASA--------KVIIGPHGSALTNLLFMPPG 173 (206)
T ss_pred CHHHHHHHHhhCCeEEEeCCCCCHHHHH---HHhcCC--------CEEEecCchHhheeeecCCC
Confidence 3446669999999998888888854444 333322 2677888874 66666655
No 90
>cd03372 TPP_ComE Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six alpha (D) subunits and six (E) beta subunits, which catalyzes the decarboxylation of sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M pathway. ComDE requires TPP and divalent metal cation cofactors.
Probab=20.99 E-value=4.7e+02 Score=24.07 Aligned_cols=66 Identities=15% Similarity=0.283 Sum_probs=38.0
Q ss_pred EEEEEeCCCCCCCCCCC-CCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecC
Q psy15857 26 LALIFNHEHFDSPHLKS-RAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTH 100 (455)
Q Consensus 26 ~aLIInN~~F~~~~l~~-R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSH 100 (455)
+.+|+||..|....... .....-|..++ .+.+|+....... +.+|+.+.|++.. +--.++-+.+..
T Consensus 90 ~vvV~NN~~~~~~~~~~~~~~~~~d~~~l---A~a~G~~~~~v~~-~~~el~~al~~a~-----~gp~lIev~~~~ 156 (179)
T cd03372 90 IIVVLDNGAYGSTGNQPTHAGKKTDLEAV---AKACGLDNVATVA-SEEAFEKAVEQAL-----DGPSFIHVKIKP 156 (179)
T ss_pred EEEEEcCccccccCCCCCCCCCCCCHHHH---HHHcCCCeEEecC-CHHHHHHHHHHhc-----CCCEEEEEEEcC
Confidence 67788999876421111 11112354544 5666776544443 7889999998876 123455555543
No 91
>PF02775 TPP_enzyme_C: Thiamine pyrophosphate enzyme, C-terminal TPP binding domain; InterPro: IPR011766 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the C-terminal TPP binding domain of TPP enzymes.; GO: 0003824 catalytic activity, 0030976 thiamine pyrophosphate binding; PDB: 2WVA_V 1ZPD_F 2WVG_B 2WVH_B 3OE1_D 2NXW_A 2Q5L_B 2Q5Q_B 2Q5J_A 2Q5O_A ....
Probab=20.62 E-value=98 Score=27.45 Aligned_cols=59 Identities=20% Similarity=0.291 Sum_probs=38.9
Q ss_pred eeEEEEEeCCCCCC------CCCCCC----C---ChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHhh
Q psy15857 24 RGLALIFNHEHFDS------PHLKSR----A---GTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAEQ 85 (455)
Q Consensus 24 ~G~aLIInN~~F~~------~~l~~R----~---Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~~ 85 (455)
.=+.+|+||..|.. .....+ . ....|...| -+.+|......++.+.+|+.+.|++..+.
T Consensus 74 ~v~~vv~nN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~---a~a~G~~~~~v~~~~~~el~~al~~a~~~ 145 (153)
T PF02775_consen 74 PVVIVVLNNGGYGMTGGQQTPFGGGRFSGVDGKTFPNPDFAAL---AEAFGIKGARVTTPDPEELEEALREALES 145 (153)
T ss_dssp SEEEEEEESSBSHHHHHHHHHTTSTCHHSTBTTTSTTCGHHHH---HHHTTSEEEEESCHSHHHHHHHHHHHHHS
T ss_pred eEEEEEEeCCcceEeccccccCcCcccccccccccccCCHHHH---HHHcCCcEEEEccCCHHHHHHHHHHHHhC
Confidence 46788889987643 011111 1 223455554 45569998877888899999999999843
No 92
>cd02004 TPP_BZL_OCoD_HPCL Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL cleaves the acyloin linkage of benzoin producing 2 molecules of benzaldehyde and enabling the Pseudomonas to grow on benzoin as the sole carbon and energy source. OCoD has a role in the detoxification of oxalate, catalyzing the decarboxylation of oxalyl-CoA to formate. 2-HPCL is a peroxisomal enzyme which plays a role in the alpha-oxidation of 3-methyl-branched fatty acids, catalyzing the cleavage of 2-hydroxy-3-methylacyl-CoA into formyl-CoA and a 2-methyl-branched fatty aldehyde. All these enzymes depend on Mg2+ and TPP for activity.
Probab=20.53 E-value=3.5e+02 Score=24.35 Aligned_cols=59 Identities=8% Similarity=-0.147 Sum_probs=35.5
Q ss_pred eeEEEEEeCCCCCCCC-C-------CCCCChHHhHHHHHHHHHhCCcEEEEecCCCHHHHHHHHHHHHh
Q psy15857 24 RGLALIFNHEHFDSPH-L-------KSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 24 ~G~aLIInN~~F~~~~-l-------~~R~Gs~~D~~~L~~~F~~LGF~V~~~~nlt~~em~~~l~~~s~ 84 (455)
+=+.+|+||..|.... . ....+.....-.+.++.+.+|+...... +.+|+.+.|++...
T Consensus 94 pv~ivv~NN~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~la~a~G~~~~~v~--~~~el~~al~~a~~ 160 (172)
T cd02004 94 PIVVVVGNNGGWYQGLDGQQLSYGLGLPVTTLLPDTRYDLVAEAFGGKGELVT--TPEELKPALKRALA 160 (172)
T ss_pred CEEEEEEECcccccchhhhhhhccCCCceeccCCCCCHHHHHHHCCCeEEEEC--CHHHHHHHHHHHHH
Confidence 3467788987664310 0 1111222222356777778898866555 48899999998765
No 93
>cd03371 TPP_PpyrDC Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus. These proteins require TPP and divalent metal cation cofactors.
Probab=20.51 E-value=3.1e+02 Score=25.52 Aligned_cols=70 Identities=14% Similarity=0.185 Sum_probs=38.9
Q ss_pred eEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEE-EEecCCCHHHHHHHHHHHHhhcCCCCceEEEEEecCCC
Q psy15857 25 GLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVV-KPYHDPEFKVIQNAIDEAAEQDYTDADCFVMAVLTHGE 102 (455)
Q Consensus 25 G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V-~~~~nlt~~em~~~l~~~s~~d~~~~d~~vvvilSHG~ 102 (455)
=+.+|+||..|.......-.+...| +.++.+.+|+.- .... +.+|+.+.|++..+. +--+++-+.+..+.
T Consensus 96 i~ivV~NN~~yg~~~~~~~~~~~~d---~~~~A~a~G~~~~~~v~--~~~el~~al~~a~~~---~~p~lIev~~~~~~ 166 (188)
T cd03371 96 LIHIVLNNGAHDSVGGQPTVSFDVS---LPAIAKACGYRAVYEVP--SLEELVAALAKALAA---DGPAFIEVKVRPGS 166 (188)
T ss_pred cEEEEEeCchhhccCCcCCCCCCCC---HHHHHHHcCCceEEecC--CHHHHHHHHHHHHhC---CCCEEEEEEecCCC
Confidence 4688889988753111111122344 445555667753 2222 788999999888642 22355555554443
No 94
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=20.47 E-value=3.2e+02 Score=29.10 Aligned_cols=39 Identities=13% Similarity=0.003 Sum_probs=33.2
Q ss_pred hHHhHHHHHHHHHhCCcEEE-EecCCCHHHHHHHHHHHHh
Q psy15857 46 TGADFENLYTTLVNLGFVVK-PYHDPEFKVIQNAIDEAAE 84 (455)
Q Consensus 46 s~~D~~~L~~~F~~LGF~V~-~~~nlt~~em~~~l~~~s~ 84 (455)
+..+++.|.+.|.+.|+.+. ++.+++.++-.+.+++|..
T Consensus 254 t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~ 293 (456)
T PRK10590 254 TKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKS 293 (456)
T ss_pred cHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHc
Confidence 45789999999999999865 4568999999999999975
No 95
>cd07062 Peptidase_S66_mccF_like Microcin C7 self-immunity protein determines resistance to exogenous microcin C7. Microcin C7 self-immunity protein (mccF): MccF, a homolog of the LD-carboxypeptidase family, mediates resistance against exogenously added microcin C7 (MccC7), a ribosomally-encoded peptide antibiotic that contains a phosphoramidate linkage to adenosine monophosphate at its C-terminus. The plasmid-encoded mccF gene is transcribed in the opposite direction to the other five genes (mccA-E) and is required for the full expression of immunity but not for production. The catalytic triad residues (Ser, His, Glu) of LD-carboxypeptidase are also conserved in MccF, strongly suggesting that MccF shares the hydrolytic activity with LD-carboxypeptidases. Substrates of MccF have not been deduced, but could likely be microcin C7 precursors. The possible role of MccF is to defend producer cells against exogenous microcin from re-entering after having been exported. It is suggested that M
Probab=20.47 E-value=2e+02 Score=29.11 Aligned_cols=51 Identities=16% Similarity=0.118 Sum_probs=31.3
Q ss_pred HHhHHHHHHHHHhCCcEEEEecCCCHH------HHHHHHHHHHhh-cCCCCceEEEEE
Q psy15857 47 GADFENLYTTLVNLGFVVKPYHDPEFK------VIQNAIDEAAEQ-DYTDADCFVMAV 97 (455)
Q Consensus 47 ~~D~~~L~~~F~~LGF~V~~~~nlt~~------em~~~l~~~s~~-d~~~~d~~vvvi 97 (455)
....++-.+.|+++||+|.+..++... .-++..+++.+- .-...++++++.
T Consensus 17 ~~~~~~~~~~L~~~G~~v~~~~~~~~~~~~~ag~~~~Ra~dL~~a~~Dp~i~aI~~~r 74 (308)
T cd07062 17 PHRLERAKKRLENLGFEVVEGPNALKGDKYLSASPEERAEELMAAFADPSIKAIIPTI 74 (308)
T ss_pred HHHHHHHHHHHHhCCCEEEEecccccccccccCCHHHHHHHHHHHhcCCCCCEEEECC
Confidence 455777788999999999988875433 234444555432 123355555554
No 96
>KOG1546|consensus
Probab=20.43 E-value=4.3e+02 Score=27.49 Aligned_cols=76 Identities=20% Similarity=0.189 Sum_probs=53.1
Q ss_pred cCCCCcccEEEEEEeccCCCCCCCCCCCcHHhHHHHHHHH-HhcCCeE-----------EEecCCCHHHHHHHHHh----
Q psy15857 371 RMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTL-VNLGFVV-----------KPYHDPEFKVIQNAIDE---- 434 (455)
Q Consensus 371 ~m~~~~~g~~lIin~~~F~~~~l~~R~Gs~~D~e~L~~~F-~~LgF~V-----------~~~~dlt~~eI~~~l~~---- 434 (455)
.|..+++.+++=||. .+. -..-.|.--|+..+++++ +++||.. ..+..||.+-|..+|..
T Consensus 59 ~~~gkrrAvLiGINY-~gT---k~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~~s~~~~PT~~Nir~Al~wLV~~ 134 (362)
T KOG1546|consen 59 QMAGKRRAVLIGINY-PGT---KNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTDESPVRIPTGKNIRRALRWLVES 134 (362)
T ss_pred cccccceEEEEeecC-CCc---HHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCCCcccccCcHHHHHHHHHHHHhc
Confidence 345455544444442 232 234568999999998666 8999973 22367899999999987
Q ss_pred -cCCcEEEEEEecccCC
Q psy15857 435 -GKDALIPSLFLPHSNK 450 (455)
Q Consensus 435 -~~~~cfv~~ilSHG~~ 450 (455)
...|++|+=..-||..
T Consensus 135 aq~gD~LvfHYSGHGtr 151 (362)
T KOG1546|consen 135 AQPGDSLVFHYSGHGTR 151 (362)
T ss_pred CCCCCEEEEEecCCCCc
Confidence 5668899899999974
No 97
>COG3959 Transketolase, N-terminal subunit [Carbohydrate transport and metabolism]
Probab=20.38 E-value=3.3e+02 Score=26.91 Aligned_cols=60 Identities=17% Similarity=0.230 Sum_probs=44.8
Q ss_pred ccccCCCCcceEEEEEeCCCCCCCCCCCCCCChHhHHHHHHHHhhcCCEEEEecCccHHHHHHHhhc
Q psy15857 289 DYYRMDHKHRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYHDPEFKVIQNAIDE 355 (455)
Q Consensus 289 ~~Y~m~~~~rG~~lI~n~~~F~~~~l~~R~Gt~~D~~~l~~~~~~Lgf~V~~~~d~~~~~i~~~l~k 355 (455)
..|+++. +..|+...++...+-.+. =+..+-|...|+.+||+|..-+-=..++|...+++
T Consensus 166 ah~~L~N----LiaivD~N~~QldG~t~~---i~~~~pL~~k~eAFGw~V~evdG~d~~~i~~a~~~ 225 (243)
T COG3959 166 AHYKLDN----LIAIVDRNKLQLDGETEE---IMPKEPLADKWEAFGWEVIEVDGHDIEEIVEALEK 225 (243)
T ss_pred HHhccCc----EEEEEecCCcccCCchhh---ccCcchhHHHHHhcCceEEEEcCcCHHHHHHHHHh
Confidence 5577754 788888888764221111 12347799999999999999998899999999984
No 98
>PRK14192 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.06 E-value=4.5e+02 Score=26.44 Aligned_cols=53 Identities=11% Similarity=0.035 Sum_probs=42.6
Q ss_pred ceeEEEEEeCCCCCCCCCCCCCChHHhHHHHHHHHHhCCcEEEEec---CCCHHHHHHHHHHHHh
Q psy15857 23 HRGLALIFNHEHFDSPHLKSRAGTGADFENLYTTLVNLGFVVKPYH---DPEFKVIQNAIDEAAE 84 (455)
Q Consensus 23 ~~G~aLIInN~~F~~~~l~~R~Gs~~D~~~L~~~F~~LGF~V~~~~---nlt~~em~~~l~~~s~ 84 (455)
.+++++|.- .++.++..-+..-.+.|+++|.+.++.. +.+.+++.+.|+++.+
T Consensus 33 ~p~L~~i~v---------g~~~~s~~Y~~~~~~~~~~~Gi~~~~~~l~~~~~~~~l~~~i~~Ln~ 88 (283)
T PRK14192 33 TPILATILV---------GDDPASATYVRMKGNACRRVGMDSLKVELPQETTTEQLLAKIEELNA 88 (283)
T ss_pred CCeEEEEEe---------CCChhHHHHHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 468888864 3455688888999999999999976653 6889999999998875
Done!