Query 045474
Match_columns 391
No_of_seqs 162 out of 1154
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 13:38:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045474.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045474hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0192 MetK S-adenosylmethion 100.0 1E-188 3E-193 1375.0 39.2 377 3-387 4-380 (388)
2 PLN02243 S-adenosylmethionine 100.0 1E-186 2E-191 1376.1 42.8 383 1-386 1-386 (386)
3 PTZ00104 S-adenosylmethionine 100.0 8E-185 2E-189 1366.4 41.5 384 2-390 9-395 (398)
4 PRK05250 S-adenosylmethionine 100.0 1E-184 3E-189 1361.4 41.2 375 3-387 2-376 (384)
5 PRK12459 S-adenosylmethionine 100.0 1E-184 3E-189 1362.6 40.5 376 1-387 1-378 (386)
6 TIGR01034 metK S-adenosylmethi 100.0 5E-184 1E-188 1353.8 40.0 371 5-387 1-371 (377)
7 KOG1506 S-adenosylmethionine s 100.0 2E-178 4E-183 1274.4 34.4 380 2-388 4-383 (383)
8 PF02773 S-AdoMet_synt_C: S-ad 100.0 2.3E-83 4.9E-88 562.8 10.0 138 240-382 1-138 (138)
9 PF02772 S-AdoMet_synt_M: S-ad 100.0 7.8E-57 1.7E-61 389.2 12.3 119 117-238 2-120 (120)
10 PF00438 S-AdoMet_synt_N: S-ad 100.0 6.4E-49 1.4E-53 330.5 6.8 100 2-101 1-100 (100)
11 PRK04439 S-adenosylmethionine 98.9 1.7E-07 3.6E-12 95.8 21.9 303 11-341 25-381 (399)
12 PF01941 AdoMet_Synthase: S-ad 98.9 2.1E-07 4.6E-12 95.0 22.4 304 11-340 25-380 (396)
13 COG1812 MetK Archaeal S-adenos 98.2 0.00012 2.5E-09 74.5 18.1 289 11-322 25-361 (400)
14 COG1325 Predicted exosome subu 61.9 12 0.00026 34.5 4.3 51 302-374 3-53 (149)
15 TIGR00590 pcna proliferating c 56.9 84 0.0018 30.6 9.4 38 281-322 204-241 (259)
16 PRK11023 outer membrane lipopr 52.3 29 0.00062 32.4 5.2 57 17-77 121-178 (191)
17 PRK11198 LysM domain/BON super 47.7 32 0.00068 30.9 4.5 40 20-60 24-63 (147)
18 PF02980 FokI_C: Restriction e 45.5 20 0.00043 32.9 2.9 37 278-314 77-113 (142)
19 PF14084 DUF4264: Protein of u 43.2 6.9 0.00015 30.3 -0.3 39 98-142 11-49 (52)
20 cd01269 PLX Pollux (PLX) Phosp 42.5 64 0.0014 29.3 5.6 43 51-93 6-48 (129)
21 PF00352 TBP: Transcription fa 37.2 47 0.001 27.0 3.6 57 185-242 3-64 (86)
22 PF04208 MtrA: Tetrahydrometha 36.0 45 0.00098 31.7 3.7 41 34-75 18-65 (176)
23 cd04518 TBP_archaea archaeal T 35.5 1.3E+02 0.0027 28.1 6.6 82 186-300 2-87 (174)
24 PRK00394 transcription factor; 32.2 1.7E+02 0.0037 27.3 7.0 81 186-299 1-85 (179)
25 KOG3447 Mitochondrial/chloropl 29.8 19 0.00041 33.0 0.2 12 249-260 95-106 (150)
26 PRK11023 outer membrane lipopr 28.3 1E+02 0.0023 28.7 4.9 43 18-61 44-89 (191)
27 PRK10568 periplasmic protein; 26.2 1.3E+02 0.0029 28.3 5.2 52 23-77 61-112 (203)
28 PRK14053 methyltransferase; Pr 26.0 88 0.0019 30.2 3.9 42 33-75 17-62 (194)
29 PF02171 Piwi: Piwi domain; I 25.0 56 0.0012 31.6 2.5 22 134-155 279-300 (302)
30 KOG2978 Dolichol-phosphate man 24.8 75 0.0016 31.1 3.2 37 305-342 197-233 (238)
31 COG5309 Exo-beta-1,3-glucanase 24.0 74 0.0016 32.5 3.1 85 16-108 110-194 (305)
32 PRK00964 tetrahydromethanopter 24.0 86 0.0019 30.9 3.5 42 33-75 20-69 (225)
33 cd00652 TBP_TLF TATA box bindi 24.0 3.8E+02 0.0082 24.9 7.6 81 186-299 2-86 (174)
34 PLN00062 TATA-box-binding prot 23.6 2.7E+02 0.0059 26.2 6.6 80 186-298 2-85 (179)
35 PRK04964 hypothetical protein; 22.7 70 0.0015 25.9 2.2 31 117-162 14-44 (66)
36 cd04516 TBP_eukaryotes eukaryo 22.5 2.9E+02 0.0062 25.8 6.5 81 186-299 2-86 (174)
37 PF07918 CAP160: CAP160 repeat 21.7 48 0.001 22.6 0.9 10 289-298 14-23 (27)
38 cd04517 TLF TBP-like factors ( 21.5 1.5E+02 0.0032 27.6 4.4 57 186-242 3-62 (174)
39 PF00403 HMA: Heavy-metal-asso 21.4 3.2E+02 0.0069 20.0 5.5 54 20-79 9-62 (62)
40 PF06786 UPF0253: Uncharacteri 21.4 79 0.0017 25.6 2.2 31 117-162 14-44 (66)
41 COG1608 Predicted archaeal kin 21.1 1.4E+02 0.003 29.9 4.4 55 275-341 72-128 (252)
42 COG1419 FlhF Flagellar GTP-bin 20.5 1.2E+02 0.0026 32.3 4.0 54 317-371 284-357 (407)
43 smart00760 Bac_DnaA_C Bacteria 20.3 1.1E+02 0.0024 23.1 2.8 24 330-353 2-25 (60)
44 PF04566 RNA_pol_Rpb2_4: RNA p 20.2 1.9E+02 0.0041 22.8 4.2 26 146-178 15-40 (63)
45 COG4081 Uncharacterized protei 20.0 62 0.0013 29.8 1.5 23 129-151 9-31 (148)
No 1
>COG0192 MetK S-adenosylmethionine synthetase [Coenzyme metabolism]
Probab=100.00 E-value=1.2e-188 Score=1374.98 Aligned_cols=377 Identities=62% Similarity=1.006 Sum_probs=368.3
Q ss_pred ccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCCC
Q 045474 3 TFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSAD 82 (391)
Q Consensus 3 ~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~~ 82 (391)
.+|||||||+|||||||||||||||||+||+|||+|||||||++++|+|+|+|||+|+++||+++++|++|++|||++++
T Consensus 4 ~~lFTSESVseGHPDKi~DqISDaILD~~L~~Dp~srVAcEt~v~tg~v~i~GEitt~~~vd~~~~~r~~I~~IGY~~~~ 83 (388)
T COG0192 4 YFLFTSESVSEGHPDKICDQISDAILDAILKQDPNSRVACETLVTTGLVVIAGEITTSAYVDIVNIARKTIKEIGYTESD 83 (388)
T ss_pred cceeeeccccCCCChHHHHHHhHHHHHHHHhcCCCceEEEEEEEecCeEEEEEEEecCccccHHHHHHHHHHHhCCCccc
Confidence 56999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCceEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCCC
Q 045474 83 VGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCP 162 (391)
Q Consensus 83 ~gfd~~~~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~~ 162 (391)
+|||++||.|+++|++|||||+|||++..+ ..+++|||||||||||||||||+||||||+|||+|++||+++||+|.+|
T Consensus 84 ~Gfd~~t~~vl~~i~~QSpDIaqgVd~~~~-~~~~~GAGDQGimFGyA~~ET~~lMPlpI~lAH~l~~r~a~~Rk~g~l~ 162 (388)
T COG0192 84 YGFDAKTCAVLVAIGEQSPDIAQGVDEADE-ELDEIGAGDQGIMFGYACNETPELMPLPISLAHRLLRRLAEVRKNGELP 162 (388)
T ss_pred cCcCccceEEEeecccCChhHHHhhhhccc-chhhcCCCcceeEeeeecCCcccccChHHHHHHHHHHHHHHHHhcCCCc
Confidence 999999999999999999999999996532 3568999999999999999999999999999999999999999999999
Q ss_pred cccCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCeEEcC
Q 045474 163 WLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIGG 242 (391)
Q Consensus 163 ~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~FviGG 242 (391)
|||||+||||||+|++ ++ +|++|+|||+||||++++++++||+.++|+||+|++|+++++++|+|+|||||||||||
T Consensus 163 ~LrpD~KsQVtv~Y~~-~~--~p~~idtIvvStQH~~~i~~~~l~~~v~e~iI~pv~~~~~l~~~tk~~INPtGrFViGG 239 (388)
T COG0192 163 WLRPDAKSQVTVEYED-NG--KPVRIDTIVVSTQHDPDISQEQLREDVIEEIIKPVLPEELLDDKTKYFINPTGRFVIGG 239 (388)
T ss_pred ccCCCcceeEEEEEcC-CC--CceeEEEEEEEeccCcccCHHHHHHHHHHHHHhhhccHhhcCcCceEEECCCCCeeeCC
Confidence 9999999999999986 35 89999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEEee
Q 045474 243 PHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFVDT 322 (391)
Q Consensus 243 P~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V~t 322 (391)
|+||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++|+||+|||
T Consensus 240 P~gD~GLTGRKIIVDTYGG~a~HGGGAFSGKDptKVDRSaAYaARyvAKNiVAAglA~~ceVQlsYAIGva~PvSi~Vdt 319 (388)
T COG0192 240 PQGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCEVQLSYAIGVAEPVSISVDT 319 (388)
T ss_pred CCccccCccceEEEEcCCCccCCCCccCCCCCCcccchHHHHHHHHHHHHHHHhhhhhheEEEEEeEecccCceEEEEEc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccccccCC
Q 045474 323 YGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKLLK 387 (391)
Q Consensus 323 fgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~~ 387 (391)
|||+++++++|.++|+++|||||++||+.|+|++| ||++||+||||||++ +|||||+|+++
T Consensus 320 fgT~kvse~~i~~~v~~~FdlrP~gIi~~LdL~~p---iY~~tAaYGHFGr~~-~~pWEk~dkv~ 380 (388)
T COG0192 320 FGTGKVSEEKIEEAVRKVFDLRPAGIIKMLDLLRP---IYRKTAAYGHFGRED-DFPWEKLDKVD 380 (388)
T ss_pred cCCcccCHHHHHHHHHHhcCCCHHHHHHHhccCCc---cchhcccccccCCCC-CCCccchhhHH
Confidence 99999999999999999999999999999999999 999999999999987 89999999874
No 2
>PLN02243 S-adenosylmethionine synthase
Probab=100.00 E-value=9.6e-187 Score=1376.13 Aligned_cols=383 Identities=90% Similarity=1.407 Sum_probs=370.3
Q ss_pred CCccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCC
Q 045474 1 MDTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVS 80 (391)
Q Consensus 1 ~~~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~ 80 (391)
|.+||||||||++||||||||||||||||+||+|||+|||||||++++|+|+|+|||||+++||++++||++|++|||++
T Consensus 1 ~~~~lfTSESV~eGHPDKicDqISDaILDa~L~qDp~srVA~Et~v~~~~V~i~GEitt~a~vd~~~ivR~~i~~IGY~~ 80 (386)
T PLN02243 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLAQDPDSKVACETCTKTNMVMVFGEITTKAKVDYEKIVRDTCREIGFVS 80 (386)
T ss_pred CCceEEEecCCCCCCChHHHHHHHHHHHHHHHhhCCCCcEEEEEEEECCEEEEEEEECCCCcCCHHHHHHHHHHHhCCCC
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCceEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCC
Q 045474 81 ADVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKT 160 (391)
Q Consensus 81 ~~~gfd~~~~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~ 160 (391)
+++|||+++|.|+++|++|||||+|||+.+.++..+++|||||||||||||||||+||||||+|||+|++||+++||+|.
T Consensus 81 ~~~gfd~~t~~v~~~i~~QSpdIa~gV~~~~~~~~~~iGAGDQGimfGYA~~ET~e~MPlpi~lAh~l~~~l~~~Rk~~~ 160 (386)
T PLN02243 81 DDVGLDADKCKVLVNIEQQSPDIAQGVHGHLTKKPEEIGAGDQGHMFGYATDETPELMPLTHVLATKLGARLTEVRKNGT 160 (386)
T ss_pred cccCcCCCceEEEecCCCCChhHhhccccccccccccCCCCcceEEeeeecCCCcccCChHHHHHHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999985422223458999999999999999999999999999999999999999999
Q ss_pred CCcccCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCeEE
Q 045474 161 CPWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVI 240 (391)
Q Consensus 161 ~~~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~Fvi 240 (391)
+|||||||||||||+|+++.+.++|+||++||||+||++++++++++++|+|+||+|++|+++++++|+||||||||||+
T Consensus 161 ~~~l~PD~KsQVtv~Y~~~~~~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~vi~~v~~~~~~~~~t~~~INPtGrFvi 240 (386)
T PLN02243 161 CPWLRPDGKTQVTVEYKNEGGAMVPIRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240 (386)
T ss_pred CCeecCCCceEEEEEeecCCCCccceeEeEEEEeeccCCCCCHHHHHHHHHHHHhHHhcCcccCCCCcEEEECCCCCeEe
Confidence 99999999999999997543544599999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEE
Q 045474 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFV 320 (391)
Q Consensus 241 GGP~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V 320 (391)
|||.||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++||||+|
T Consensus 241 GGP~~D~GLTGRKIiVDTYGG~~~hGGGAFSGKDptKVDRSaAY~AR~iAKniVaaglA~rceVQlsYAIGva~Pvsi~V 320 (386)
T PLN02243 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSVVAAGLARRCIVQVSYAIGVPEPLSVFV 320 (386)
T ss_pred CCCcccccccCceEEEEcCCCccCCCCccccCCCcchhhhHHHHHHHHHHHHHHhhcCCCeeEEEEEEEcccCcCcEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCCCcCCHHHHHHHHHHhCCCChHHHHHHhcccc---ccccccccccccccCCCCCCCCCccccccC
Q 045474 321 DTYGTGKISDKDILALIKENFDFRPGMIAINLDLKR---GGNFRYQKTAACGHFGRDDPDFTWETVKLL 386 (391)
Q Consensus 321 ~tfgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~---P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~ 386 (391)
|||||+++++++|.++|+++|||||++||++|+|++ | ||++||+||||||++++|||||+|+|
T Consensus 321 ~TfGT~~~~d~~i~~~v~~~Fdlrp~~Ii~~L~L~~~~~p---iY~~ta~yGHFGr~~~~fpWE~~d~~ 386 (386)
T PLN02243 321 DTYGTGKIPDKEILKIVKENFDFRPGMIAINLDLKRGGNG---RFQKTAAYGHFGRDDPDFTWEVVKPL 386 (386)
T ss_pred ecCCCCcCCHHHHHHHHHHHcCCCHHHHHHhcCCCCCCCC---cchhccccCCCCCCCCCCCccccCCC
Confidence 999999999999999999999999999999999999 8 99999999999999889999999986
No 3
>PTZ00104 S-adenosylmethionine synthase; Provisional
Probab=100.00 E-value=8.2e-185 Score=1366.43 Aligned_cols=384 Identities=72% Similarity=1.149 Sum_probs=370.4
Q ss_pred CccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCC
Q 045474 2 DTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSA 81 (391)
Q Consensus 2 ~~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~ 81 (391)
++||||||||+|||||||||||||||||+||+|||+|||||||++++|+|+|+|||+|+++||+++|||++|++|||+++
T Consensus 9 ~~~lfTSESVseGHPDKicDqISDaILD~~L~qDp~srVA~Et~v~~~~V~v~GEitt~a~vDi~~ivR~~i~~IGY~~~ 88 (398)
T PTZ00104 9 GHFLFTSESVSEGHPDKLCDQISDAVLDACLAQDPLSKVACETCAKTGMVMVFGEITTKAVVDYQKVVRDTVKEIGYDDT 88 (398)
T ss_pred CCEEEEecCCCCCCCcHHHHHHHHHHHHHHHhcCCCCcEEEEEEEeCCEEEEEEEEcCCccCCHHHHHHHHHHHhCCCCc
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCC
Q 045474 82 DVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTC 161 (391)
Q Consensus 82 ~~gfd~~~~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~ 161 (391)
++|||+++|.|+++|++|||||+|||+.. ...+++|||||||||||||||||+||||||+|||+|++||+++||+|.+
T Consensus 89 ~~gfd~~t~~v~~~i~~QSpDIa~gV~~~--~~~~~iGAGDQGimfGYA~~ET~~~MPlpi~lAh~L~~~l~~~Rk~~~~ 166 (398)
T PTZ00104 89 EKGLDYKTCNVLVAIEQQSPDIAQGVHVG--KKEEDIGAGDQGIMFGYATDETEELMPLTHELATKLAKRLSELRKNGIL 166 (398)
T ss_pred ccCcCCCceEEEecCCCCChhHhhccccc--cccccCCCCccceeeeeecCCCcccCCcHHHHHHHHHHHHHHHHhcCCC
Confidence 99999999999999999999999999842 1124589999999999999999999999999999999999999999999
Q ss_pred CcccCCceeeEEEEEecCC-CcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCeEE
Q 045474 162 PWLRPDGKTQVTVEYRNEG-GAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVI 240 (391)
Q Consensus 162 ~~l~pD~KtQVtv~Y~~~~-g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~Fvi 240 (391)
|||||||||||||+|+++. +.++|+||+|||||+||++++++++|+++|+++||+|++|.+|++++|+||||||||||+
T Consensus 167 ~~L~PD~KsQVtv~Y~~~~~~~~~P~~i~tivvS~QH~~~v~~~~l~~~i~~~vi~~v~~~~~~~~~t~~~INPtGrFvi 246 (398)
T PTZ00104 167 PWLRPDAKTQVTVEYEYDTRGGLTPKRVHTILISTQHDEGVSNEEIREDLMEHVIKPVIPAKLLDEETKYHLNPSGRFVI 246 (398)
T ss_pred CeeccCCceEEEEEeccCCCCCccceeEEEEEEccccCCCCCHHHHHHHHHHHHHHHhcCcccCCCCcEEEECCCCCeEe
Confidence 9999999999999996531 115899999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEE
Q 045474 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFV 320 (391)
Q Consensus 241 GGP~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V 320 (391)
|||.||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++||||+|
T Consensus 247 GGP~gDtGLTGRKIiVDTYGG~a~HGGGAFSGKDptKVDRSaAY~ARyiAKniVAAGlA~~ceVQlsYAIGva~Pvsi~V 326 (398)
T PTZ00104 247 GGPHGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPSKVDRSAAYAARWIAKSLVAAGLCKRCLVQVSYAIGVAEPLSIHV 326 (398)
T ss_pred CCCcccccccCceEEEEcCCCccCCCCccccCCCcchhhhHHHHHHHHHHHHHHhhccccceEEEEEEEcccCCCceeEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCCCcC--CHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccccccCCCCC
Q 045474 321 DTYGTGKI--SDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKLLKPTE 390 (391)
Q Consensus 321 ~tfgT~~~--~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~~~~~ 390 (391)
|||||+++ ++++|.++|+++|||||++||++|+|++| ||++||+||||||++++||||++|+++.+.
T Consensus 327 ~TfGT~~~~~~~~~i~~~v~~~Fdl~P~~II~~L~L~~P---iY~~ta~yGHFGr~~~~f~WE~~d~~~~~~ 395 (398)
T PTZ00104 327 NTYGTGKKGYDDEDLLEIVQKNFDLRPGDIIKELDLRRP---IFQKTASYGHFGRSDPEFTWEVPKDLEHEK 395 (398)
T ss_pred ecCCCcccCCCHHHHHHHHHHHcCCCHHHHHHHhCCCCh---hhhhhhccCccCCCCCCCCccccchhcccc
Confidence 99999999 99999999999999999999999999999 999999999999998889999999998764
No 4
>PRK05250 S-adenosylmethionine synthetase; Validated
Probab=100.00 E-value=1.4e-184 Score=1361.38 Aligned_cols=375 Identities=63% Similarity=1.025 Sum_probs=366.6
Q ss_pred ccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCCC
Q 045474 3 TFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSAD 82 (391)
Q Consensus 3 ~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~~ 82 (391)
+||||||||+|||||||||||||||||+||+|||+|||||||++++|+|+|+|||+|+++||++++||++|++|||++++
T Consensus 2 ~~lfTSESV~eGHPDKicDqISDaILD~~L~~Dp~srVA~Et~v~~~~V~i~GEitt~a~vD~~~ivR~~i~~IGY~~~~ 81 (384)
T PRK05250 2 RYLFTSESVSEGHPDKIADQISDAILDAILAQDPNARVACETLVTTGLVVVAGEITTSAYVDIEEIVRETIKEIGYTSSE 81 (384)
T ss_pred CceEeecCCCCCCCcHHHHHHHHHHHHHHHhhCCCCcEEEEEEeecCeEEEEEEEeCCccCCHHHHHHHHHHHcCCCCcc
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCceEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCCC
Q 045474 83 VGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCP 162 (391)
Q Consensus 83 ~gfd~~~~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~~ 162 (391)
+|||+++|.|+++|++|||||+|||+.. ..+++|||||||||||||||||+|||||++|||+|++||+++||+|.+|
T Consensus 82 ~gfd~~~~~v~~~i~~QSpdIa~gV~~~---~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~l~~~l~~~Rk~~~~~ 158 (384)
T PRK05250 82 YGFDANTCAVLVSIGEQSPDIAQGVDRD---ELDEIGAGDQGIMFGYACNETPELMPLPITLAHRLVRRLAEVRKSGTLP 158 (384)
T ss_pred cCcCCCceEEEeecCCCChhHHhhhCcc---ccccCCCCCceeeeeeecCCCcccCChHHHHHHHHHHHHHHHHhcCCCC
Confidence 9999999999999999999999999852 2356899999999999999999999999999999999999999999999
Q ss_pred cccCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCeEEcC
Q 045474 163 WLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIGG 242 (391)
Q Consensus 163 ~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~FviGG 242 (391)
||||||||||||+|++ + +|+||++||||+||++++++++++++|+|+||+|++|++|++++|+||||||||||+||
T Consensus 159 ~l~PD~KtQVtv~Y~~--~--~p~~i~tiviS~QH~~~~~~~~l~~~i~e~vi~~v~~~~~~~~~t~~~INPtG~FviGG 234 (384)
T PRK05250 159 YLRPDAKSQVTVEYEN--G--KPVRIDTIVVSTQHDPDVSQEQLREDVIEEVIKPVLPAELLDEDTKFLINPTGRFVIGG 234 (384)
T ss_pred eecCCCceEEEEEEEC--C--ceeeEEEEEEeccCCCCCCHHHHHHHHHHHHhHHhcccccCCCCeEEEECCCCCeEeCC
Confidence 9999999999999974 5 89999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEEee
Q 045474 243 PHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFVDT 322 (391)
Q Consensus 243 P~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V~t 322 (391)
|.||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++||||+|||
T Consensus 235 P~gDtGLTGRKIiVDTYGG~a~hGGGAFSGKDptKVDRSaAY~AR~iAKniVaaglA~~ceVQlsYAIGva~Pvsi~Vdt 314 (384)
T PRK05250 235 PQGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCEVQLSYAIGVAEPVSIYVDT 314 (384)
T ss_pred CcccccccCceEEEEcCCcccccCCccccCCCcchhhhHHHHHHHHHHHHHHhhcCCCceEEEEEEeeccccCceEEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccccccCC
Q 045474 323 YGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKLLK 387 (391)
Q Consensus 323 fgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~~ 387 (391)
|||+++++++|.++|+++|||||++||++|+|++| ||++||+||||||++++|||||+|+++
T Consensus 315 fGt~~~~~~~i~~~v~~~Fdl~P~~Ii~~L~L~~p---iY~~ta~yGHFGr~~~~fpWE~~d~v~ 376 (384)
T PRK05250 315 FGTGKVSDEKIEEAVREVFDLRPAGIIKMLDLRRP---IYRKTAAYGHFGREDLDFPWEKTDKVE 376 (384)
T ss_pred CCCCCCCHHHHHHHHHHHcCCCHHHHHHHhCCCCc---cchhhcccCCCCCCCCCCCCcccchHH
Confidence 99999999999999999999999999999999999 999999999999998899999999764
No 5
>PRK12459 S-adenosylmethionine synthetase; Provisional
Probab=100.00 E-value=1.2e-184 Score=1362.61 Aligned_cols=376 Identities=59% Similarity=0.971 Sum_probs=363.7
Q ss_pred CCccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCC
Q 045474 1 MDTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVS 80 (391)
Q Consensus 1 ~~~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~ 80 (391)
|++||||||||++||||||||||||||||+||+|||+|||||||++++|+|+|+|||||+|+||++++||++|++|||+
T Consensus 1 m~~~lfTSESV~eGHPDKicDqISDaILDa~L~qDp~srVA~Et~v~~~~V~v~GEitt~a~vdi~~ivR~~i~~IGY~- 79 (386)
T PRK12459 1 MSTFLFTSESVTEGHPDKLCDQISDAILDACLRQDPASRVACEVLVSTGIVIVAGEITSSAKVDIEKIVRNVIKEIGYD- 79 (386)
T ss_pred CCceeEEecCCCCCCccHHHhhHHHHHHHHHHhhCCCCcEEEEEEeecCeEEEEEEEccCccCCHHHHHHHHHHHhCCC-
Confidence 6679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCceEEEEeeccCChhhhhccCCCCC--CCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHc
Q 045474 81 ADVGLDADKCKVLVNIEEQSPEIAQSVHGNLS--KRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKN 158 (391)
Q Consensus 81 ~~~gfd~~~~~v~~~i~~QS~dIa~gV~~~~~--~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~ 158 (391)
++|||+++|.|+++|++|||||+|||+...+ +..+++|||||||||||||||||+||||||+|||+|++||+++||+
T Consensus 80 -~~gfd~~t~~v~~~i~~QSpdIa~gV~~~~~~~~~~~~iGAGDQGimfGYA~~ET~~~MPlpi~lAh~l~~~l~~~Rk~ 158 (386)
T PRK12459 80 -ELGFDPRTCTVLVSLGEQSPDIAQGVDTAEGRDEELEELGAGDQGTMFGYACDETPELMPLPIVLAHRLAKRLDQARKD 158 (386)
T ss_pred -CCCCCCCceEEEeccccCChhHhcccccccccccccccCCCCcceEeeeeecCCCcccCChHHHHHHHHHHHHHHHHhc
Confidence 8999999999999999999999999974311 1124689999999999999999999999999999999999999999
Q ss_pred CCCCcccCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCe
Q 045474 159 KTCPWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRF 238 (391)
Q Consensus 159 g~~~~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~F 238 (391)
|.+|||||||||||||+|++ + +|+||+|||||+||++++++++++++|+|+||+|++|++|++++|+|||||||||
T Consensus 159 g~~~~l~PD~KsQVtv~Y~~--~--~P~rv~tivvS~QH~~~v~~~~~~~~i~e~vi~~v~~~~~~~~~t~~~INPtGrF 234 (386)
T PRK12459 159 GLLPGLLPDGKTQVTVEYED--G--RPVRVDTIVVSAQHDESVDLETLRRDVIENVIKPVFEDFWLDDETRILINPTGRF 234 (386)
T ss_pred CCCCeecCCCceEEEEEeeC--C--ceeEEEEEEEeeccCCCCCHHHHHHHHHHHHHHHhcCcccCCCCcEEEECCCCCe
Confidence 99999999999999999964 5 8999999999999999999999999999999999999999999999999999999
Q ss_pred EEcCCCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEE
Q 045474 239 VIGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSV 318 (391)
Q Consensus 239 viGGP~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi 318 (391)
|+|||+||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++||||
T Consensus 235 viGGP~gD~GLTGRKIiVDTYGG~~~HGGGAFSGKDptKVDRSaAY~AR~iAKniVaAGlA~~ceVQlsYAIGva~Pvsi 314 (386)
T PRK12459 235 VVGGPAADTGLTGRKIMVDTYGGYARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLAKRCEVQLSYAIGKARPVSV 314 (386)
T ss_pred EeCCCcccccccCceEEEEcCCcccccCCccccCCCcchhhhHHHHHHHHHHHHHHhhcCccceEEEEEEeecccccceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeecCCCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccccccCC
Q 045474 319 FVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKLLK 387 (391)
Q Consensus 319 ~V~tfgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~~ 387 (391)
+||||||+++++++|.++|+++|||||++||++|+|++| ||++||+||||||+ +||||++|+++
T Consensus 315 ~V~TfGT~~~~~~~i~~~i~~~Fdl~P~~Ii~~L~L~~p---iY~~ta~yGHFGr~--~f~WE~~d~~~ 378 (386)
T PRK12459 315 QVNTFGTGTVSDEELTRAVREHFDLRPAGIIEKLNLRNP---IYRKTAAYGHFGRT--LFPWEKTDKAA 378 (386)
T ss_pred EEEeCCCCCCCHHHHHHHHHHHcCCCHHHHHHHcCCCCc---hhhhhcccCCCCCC--CCCcccccHHH
Confidence 999999999999999999999999999999999999999 99999999999997 59999999764
No 6
>TIGR01034 metK S-adenosylmethionine synthetase. Tandem isozymes of this S-adenosylmethionine synthetase in E. coli are designated MetK and MetX.
Probab=100.00 E-value=4.6e-184 Score=1353.81 Aligned_cols=371 Identities=61% Similarity=1.023 Sum_probs=362.2
Q ss_pred ceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCCCCC
Q 045474 5 LFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSADVG 84 (391)
Q Consensus 5 lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~~~g 84 (391)
|||||||++||||||||||||||||+||+|||+|||||||++++|+|+|+|||||+++||++++||++|++|||+++++|
T Consensus 1 lfTSESV~eGHPDKicDqISDaILD~~L~~Dp~srVA~Et~v~~~~V~i~GEitt~~~vd~~~ivR~~i~~IGY~~~~~g 80 (377)
T TIGR01034 1 LFTSESVSEGHPDKIADQISDAVLDAILKQDPKAKVACETFVKTGLVLIGGEITTSAYVDIQEVARNTIKDIGYTDSDYG 80 (377)
T ss_pred CCccCcCCCCCCcHHHHHHHHHHHHHHHhhCCCCcEEEEEEeecCeEEEEEEEcCCccCCHHHHHHHHHHHhCCCCcccC
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCCCcc
Q 045474 85 LDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWL 164 (391)
Q Consensus 85 fd~~~~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~~~l 164 (391)
||+++|.|+++|++|||||+|||+++. .+++|||||||||||||||||+||||||+|||+|++||+++||+|.+|||
T Consensus 81 fd~~t~~v~~~i~~QSpDIa~gV~~~~---~~~iGAGDQGimfGYA~~ET~e~MPl~i~lAh~l~~~l~~~Rk~g~~~~l 157 (377)
T TIGR01034 81 FDAKTCAVLVAIGNQSPDIAQGVDKAN---PEEQGAGDQGIMFGYATNETPELMPLPITLAHKLLKRAAELRKSGTLPWL 157 (377)
T ss_pred CCCCceEEEecCCCCChHHHhccccCc---cccCCCCcceeeeeeecCCCcccCChHHHHHHHHHHHHHHHHhcCCCCee
Confidence 999999999999999999999998431 23589999999999999999999999999999999999999999999999
Q ss_pred cCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCeEEcCCC
Q 045474 165 RPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIGGPH 244 (391)
Q Consensus 165 ~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~FviGGP~ 244 (391)
||||||||||+|++ + +|+||+|||||+||++++++++++++|+|+||+|++|++|++++|+||||||||||+|||.
T Consensus 158 ~PD~KtQVtveY~~--~--~P~rv~tivvS~QH~~~v~~~~l~~~i~~~vi~~v~~~~~~~~~t~~~INPtGrFviGGP~ 233 (377)
T TIGR01034 158 RPDGKSQVTVQYED--N--KPVRVDTIVLSTQHDPDISQKDLREAIIEEIIKPVLPAEYLDEKTKFFINPTGRFVIGGPM 233 (377)
T ss_pred cCCCceEEEEEEEC--C--ceeEEEEEEEecCCCCCCCHHHHHHHHHHHHhHHhcCcccCCCCcEEEECCCCCeEeCCCc
Confidence 99999999999964 5 7999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEEeecC
Q 045474 245 GDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFVDTYG 324 (391)
Q Consensus 245 ~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V~tfg 324 (391)
||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++||||+|||||
T Consensus 234 gDtGLTGRKIiVDTYGG~~~hGGGAFSGKDptKVDRSaAY~AR~iAKniVaAgla~~c~VQlsYaIGva~Pvsi~V~tfG 313 (377)
T TIGR01034 234 GDTGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLADRCEVQLSYAIGVAEPVSIMIETFG 313 (377)
T ss_pred cccccccceEEEeccCcccccCCccccCCCcchhhhHHHHHHHHHHHHHHhhcCcceeEEEEEEEcCcCCCceEEEEcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccccccCC
Q 045474 325 TGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKLLK 387 (391)
Q Consensus 325 T~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~~ 387 (391)
|+++++++|.++|+++|||||++||++|+|++| ||++||+||||||+ +||||++|+++
T Consensus 314 T~~~~~~~i~~~v~~~FdlrP~~Ii~~L~L~~p---iY~~ta~yGHFGr~--~~~WE~~d~~~ 371 (377)
T TIGR01034 314 TSKKSEEELLNVVKENFDLRPGGIIEKLDLLKP---IYRKTAVYGHFGRE--EFPWEKPDKLE 371 (377)
T ss_pred CccCCHHHHHHHHHHhcCCCHHHHHHHhCCCCc---hhhhhcccCCCCCC--CCCccccchHH
Confidence 999999999999999999999999999999999 99999999999997 69999999764
No 7
>KOG1506 consensus S-adenosylmethionine synthetase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.7e-178 Score=1274.44 Aligned_cols=380 Identities=72% Similarity=1.130 Sum_probs=373.7
Q ss_pred CccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCC
Q 045474 2 DTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSA 81 (391)
Q Consensus 2 ~~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~ 81 (391)
.+||||||||+||||||||||||||||||||+|||+|+|||||..++|||+++|||||+|.|||+++||++++.|||+++
T Consensus 4 ~tFLFTSESVgEGHPDKmCDQISDAiLDAhLkqDP~aKVACETv~KTgMiml~GEITska~vDYqkvVR~tik~IGydds 83 (383)
T KOG1506|consen 4 ETFLFTSESVGEGHPDKMCDQISDAILDAHLKQDPNAKVACETVTKTGMIMLCGEITSKAVVDYQKVVRDTIKKIGYDDS 83 (383)
T ss_pred ceeEEeeccccCCCchHHHHHHHHHHHHHHhhcCCCceeeeeeccccceEEEeeeccchhhhhHHHHHHHHHHHhCCccc
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCC
Q 045474 82 DVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTC 161 (391)
Q Consensus 82 ~~gfd~~~~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~ 161 (391)
..|||++||+|+++|++|||||||||+- ++..+++||||||||||||||||||+|||++.|||+|..+|+++|++|++
T Consensus 84 skGfD~ktcnvLvaieQQSPdIAqgvH~--~k~~edvGAGDQgimfGYATdet~e~mplt~~lahkln~~l~~~rr~g~l 161 (383)
T KOG1506|consen 84 SKGFDYKTCNVLVAIEQQSPDIAQGVHV--DKDEEDVGAGDQGIMFGYATDETPECMPLTIVLAHKLNAKLAELRRNGTL 161 (383)
T ss_pred ccCccccccceeeeecccCchhhhcccc--cCCHhHcCCCcceeEeeeecCCCccccchHHHHHHHHHHHHHhhcccCcc
Confidence 9999999999999999999999999994 45677999999999999999999999999999999999999999999999
Q ss_pred CcccCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCeEEc
Q 045474 162 PWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIG 241 (391)
Q Consensus 162 ~~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~FviG 241 (391)
||||||+|||||++|.+++|++.|.||||||||+||+++|++++||++++|+||++|+|++++|++|.|||||+||||||
T Consensus 162 ~WlRpdsktqVTvey~~~~Ga~vP~rVhtvviS~QH~~~is~~~lr~~l~e~vik~viPa~~lDe~Tiyhl~PsGrFviG 241 (383)
T KOG1506|consen 162 PWLRPDSKTQVTVEYMNDNGAMVPLRVHTVVISTQHSEDITLDDLRAELKEKVIKPVIPAKYLDEKTIYHLNPSGRFVIG 241 (383)
T ss_pred cccccCCcceEEEEEecCCCceeeeEEEEEEEecccCccccHHHHHHHHHHhhhhhcCcHhhcCccceEEecCCccEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEEe
Q 045474 242 GPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFVD 321 (391)
Q Consensus 242 GP~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V~ 321 (391)
||+||+|||||||||||||||++||||||||||||||||||||+|||+||++|+||||+||+||+|||||+++|+||+|+
T Consensus 242 GP~GDAGlTGRKIIvDtYGGwgahGGGAFSGKD~tKVDRSaAYaaRwvAkSlV~aGl~rR~lVQvSYAIGvaePlSv~v~ 321 (383)
T KOG1506|consen 242 GPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPTKVDRSAAYAARWVAKSLVAAGLCRRCLVQVSYAIGVAEPLSVFVF 321 (383)
T ss_pred CCCcccccccceEEEeccCcccccCCcccCCCCccccchHHHHHHHHHHHHHHHhhhhhheeeEEeeeecCCCceEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccccccCCC
Q 045474 322 TYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKLLKP 388 (391)
Q Consensus 322 tfgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~~d~~~~ 388 (391)
||||+..++++|.++|++||||||+.|+++|+|+|| ||.+||+|||||+. +||||++++|++
T Consensus 322 ~ygTs~~s~~ell~iv~~nFDlrPG~ivk~LdLkrp---iy~~Ta~yGHFg~~--~f~WE~pk~Lk~ 383 (383)
T KOG1506|consen 322 TYGTSTKSDKELLEIVKKNFDLRPGMIVKNLDLKRP---IYLKTAAYGHFGDQ--EFPWEVPKPLKI 383 (383)
T ss_pred eccCCCCCHHHHHHHHHhccCCCCceEEeecccccc---cccccccccccCCC--CCCccccccCCC
Confidence 999999999999999999999999999999999999 99999999999975 699999999864
No 8
>PF02773 S-AdoMet_synt_C: S-adenosylmethionine synthetase, C-terminal domain; InterPro: IPR022630 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the C-terminal domain of S=adenosylmethionine synthetase and is found in association with PF00438 from PFAM and PF02772 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3IML_B 1QM4_B 1O9T_B 1O93_A 1O92_B 1O90_A 1FUG_A 1RG9_D 1XRA_A 1P7L_C ....
Probab=100.00 E-value=2.3e-83 Score=562.80 Aligned_cols=138 Identities=72% Similarity=1.234 Sum_probs=121.9
Q ss_pred EcCCCCCcccCCceEEEecCCCccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEE
Q 045474 240 IGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVF 319 (391)
Q Consensus 240 iGGP~~DtGLTGRKiiVDTYGG~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~ 319 (391)
||||.||||||||||||||||||++|||||||||||||||||||||||||||||||||||+|||||||||||+++|+||+
T Consensus 1 iGGp~~D~GlTGRKiivDtYGg~~~hGGGafSGKD~tKvDRsaaY~aR~iAKniVaagla~~c~vqlsYaIGv~~P~si~ 80 (138)
T PF02773_consen 1 IGGPQGDTGLTGRKIIVDTYGGWARHGGGAFSGKDPTKVDRSAAYMARYIAKNIVAAGLAKRCEVQLSYAIGVAEPVSIY 80 (138)
T ss_dssp S-TTTTSEEETTSSTTTTTTTTSSB-BS---TTB-TTSHHHHHHHHHHHHHHHHHHTTSBSEEEEEEEE-TT-SS-SEEE
T ss_pred CCCCccccccccceEEEecccCceecCCccccCCChhhhhccHHHHHHHHHHHHHHccchHHHHhhceeeeccccCcccE
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeecCCCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCCCCCCCccc
Q 045474 320 VDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWET 382 (391)
Q Consensus 320 V~tfgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~~~~fpWE~ 382 (391)
||||||+++++++|.++|+++|||||++||++|+|++| ||++||+||||||++ |||||
T Consensus 81 v~tfgT~~~~d~~i~~~I~~~Fdl~P~~II~~L~L~~P---iY~~TA~yGHFGr~~--~~WE~ 138 (138)
T PF02773_consen 81 VDTFGTGKISDEEILEIIKENFDLRPAGIIKELDLRRP---IYRKTAAYGHFGRED--FPWEK 138 (138)
T ss_dssp EEETT-BSS-HHHHHHHHHHHS--SHHHHHHHCTTTSS---THGGGGSS-SSSSTT--SGGG-
T ss_pred EEeCCCccchHHHHHHHHHHHhCCcHHHHHHHhCcCCc---hhHhhhCcCCCCCCC--CCCCC
Confidence 99999999999999999999999999999999999999 999999999999976 99997
No 9
>PF02772 S-AdoMet_synt_M: S-adenosylmethionine synthetase, central domain; InterPro: IPR022629 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the central domain and is found in association with PF00438 from PFAM and PF02773 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3S82_B 2OBV_A 3RV2_A 1FUG_A 1RG9_D 1XRA_A 1P7L_C 1XRB_A 1MXA_A 1MXB_A ....
Probab=100.00 E-value=7.8e-57 Score=389.16 Aligned_cols=119 Identities=66% Similarity=1.087 Sum_probs=107.9
Q ss_pred CCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCCCcccCCceeeEEEEEecCCCcceeeEEeEEEEeee
Q 045474 117 EIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQ 196 (391)
Q Consensus 117 ~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~~~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~Q 196 (391)
++|||||||||||||||||+||||||+|||+|++||+++|++|.+|||||||||||||+|+.+ + +|+||++||||+|
T Consensus 2 ~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~R~~~~~~~l~PD~KsQVtveY~~~-~--~P~ri~tivvS~Q 78 (120)
T PF02772_consen 2 EIGAGDQGIMFGYACDETPELMPLPIVLAHRLARRLAEVRKNGELPWLRPDGKSQVTVEYDEN-G--KPVRIDTIVVSTQ 78 (120)
T ss_dssp CCSBSS-EEEEEEEETTSTTSS-HHHHHHHHHHHHHHHHHHTSSSTTEEEEEEEEEEEEEEET-T--EEEEEEEEEEEEE
T ss_pred CcCcCcceEEEeeEcCCCCccCChHHHHHHHHHHHHHHHHhcccCcccCCCcceeEEEeeccC-C--ceeeeeEEEEEec
Confidence 689999999999999999999999999999999999999999999999999999999999654 5 8999999999999
Q ss_pred cCCCCCHHHHHHHHHHhhcccccCCCCCCCCcEEEECCCCCe
Q 045474 197 HDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRF 238 (391)
Q Consensus 197 H~~~v~~~~l~~~i~e~Vi~~v~~~~~~~~~t~~~INPtG~F 238 (391)
|+++++++++|++|+++||+||+|+++++++|+|||||||||
T Consensus 79 H~~~i~~~~ir~~i~e~Vi~~v~~~~~~~~~t~~~INPtGrF 120 (120)
T PF02772_consen 79 HDEDISLEEIREDIKEKVIKPVIPEYLLDEDTKILINPTGRF 120 (120)
T ss_dssp E-TTS-HHHHHHHHHHHTHHHHSHGGG-BTT-EEEESTTS--
T ss_pred CCCCCCHHHHHHHHHHHHHHHhcccccCCCCcEEEECCCCCC
Confidence 999999999999999999999999999999999999999998
No 10
>PF00438 S-AdoMet_synt_N: S-adenosylmethionine synthetase, N-terminal domain; InterPro: IPR022628 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the N-terminal domain of S-adenosylmethionine synthetase and is found in association with PF02772 from PFAM and PF02773 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3RV2_A 3TDE_B 3S82_B 3IML_B 2P02_A 2OBV_A 1QM4_B 1O9T_B 1O93_A 1O92_B ....
Probab=100.00 E-value=6.4e-49 Score=330.50 Aligned_cols=100 Identities=62% Similarity=1.040 Sum_probs=93.2
Q ss_pred CccceecccCCCCCCchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCC
Q 045474 2 DTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSA 81 (391)
Q Consensus 2 ~~~lfTSESV~eGHPDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~ 81 (391)
++||||||||++||||||||||||||||+||++||+|||||||++++|+|+|+|||++++++|++++||++|++|||+++
T Consensus 1 ~~~lfTSESV~~GHPDKicDqISDailD~~l~~dp~arVA~E~~~~~~~v~i~GEi~~~~~vd~~~ivR~~i~~IGY~~~ 80 (100)
T PF00438_consen 1 KKYLFTSESVSEGHPDKICDQISDAILDACLKQDPNARVACETLVSTGMVIIAGEITSRAYVDIEKIVREVIKDIGYDDS 80 (100)
T ss_dssp -EEEEEEEEE-TTSHHHHHHHHHHHHHHHHHHH-TT-EEEEEEEEETTEEEEEEEEESSHHHTHHHHHHHHHHHHT-EEG
T ss_pred CceEEeeccccCCCchhhhceeeeccchHHHhcCCCCeEEEEEEeeccEEEEEEEeccchhhhHHHHHHHHHHHhCCCCc
Confidence 36999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEEeeccCCh
Q 045474 82 DVGLDADKCKVLVNIEEQSP 101 (391)
Q Consensus 82 ~~gfd~~~~~v~~~i~~QS~ 101 (391)
++|||+++|+|+++|++|||
T Consensus 81 ~~gfd~~tc~V~~~i~~QSp 100 (100)
T PF00438_consen 81 EYGFDYDTCEVLVAIHEQSP 100 (100)
T ss_dssp GGTEETTTSEEEEEEEEE-H
T ss_pred cCCCCCCcceEEEeecccCc
Confidence 99999999999999999998
No 11
>PRK04439 S-adenosylmethionine synthetase; Provisional
Probab=98.93 E-value=1.7e-07 Score=95.83 Aligned_cols=303 Identities=21% Similarity=0.310 Sum_probs=186.0
Q ss_pred CCCCCCchhhhhHHHHHHHH----Hhhc---------CCCCcEEEEEeee--------eCeEEEEEEEeecc---cccHH
Q 045474 11 VNEGHPDKLCDQISDAILDA----CLEQ---------DPESKVACETCAK--------TNMVMVFGEITTKA---KVDYE 66 (391)
Q Consensus 11 V~eGHPDKicDqISDaILDa----~L~~---------Dp~arVA~E~~v~--------~~~v~i~GEitt~a---~vd~~ 66 (391)
=+-||||-|||-|++++=-+ ||++ |+---||-++.-+ .=.++++|..|+.. .+.+.
T Consensus 25 KGiGHPDticD~iaE~~S~~Ls~~Yl~~fG~ILHHN~DK~llvgG~s~p~fGGG~vi~Pi~ii~~GRAt~~~~g~~iPv~ 104 (399)
T PRK04439 25 KGIGHPDTICDGIAEAVSRALSRYYLEKFGAILHHNTDKVLLVGGRSAPKFGGGEVIEPIYIILGGRATKEVGGEEIPVG 104 (399)
T ss_pred cCCCCChHHHHHHHHHHHHHHHHHHHHHhCCeeccccchheEEccEEeccCCCceEEeeEEEEEecceeeeECCeEecHH
Confidence 36799999999999987544 3332 6666666665433 22357889888764 48888
Q ss_pred HHHHHHHHhcCCCC-CCCCCCCCc-eEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHH
Q 045474 67 KVVRDTCRGIGFVS-ADVGLDADK-CKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVL 144 (391)
Q Consensus 67 ~ivr~~i~~IGY~~-~~~gfd~~~-~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~l 144 (391)
+|+.++.|+ |=. .--.+|.+. ..|...+.+-|+|+..-..+. ..-.+|-|-....||| ||+-
T Consensus 105 ~Ia~~Aak~--~L~~~l~~lD~e~hv~i~~~i~~GS~dL~~vF~r~----~~vp~ANDTS~gVGyA--------PlS~-- 168 (399)
T PRK04439 105 EIAIEAAKE--YLRENLRNLDPERHVIIDVRLGPGSTDLVDVFERE----SIVPLANDTSFGVGYA--------PLSE-- 168 (399)
T ss_pred HHHHHHHHH--HHHHhCccCCccccEEEEEeeCCCcHHHHHHhCCC----CCccccccccceeecC--------CCCH--
Confidence 887655554 111 122355544 567788899999998655431 1135899999999997 5532
Q ss_pred HHHHHHHHHHHHHc----CCCCcccCCceeeEEEEEecCCCcceeeEEeEEEEe----eecCCCCC-HHHHHHHHHHhhc
Q 045474 145 ATKLGARLTEVRKN----KTCPWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLIS----TQHDETVT-KEQISEDLKEHVI 215 (391)
Q Consensus 145 Ah~L~~~l~~~Rk~----g~~~~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS----~QH~~~v~-~~~l~~~i~e~Vi 215 (391)
--+|+..++..-.+ ..+||.+.|-|.- -+ ++. . ++ ++.|. ..|-.+++ .-+.++.+++.|-
T Consensus 169 ~E~~Vl~~E~~lns~~~k~~~P~~GeDiKVM-G~--R~g-~-----~i-~lTVa~a~v~r~v~~~~~Y~~~k~~v~~~v~ 238 (399)
T PRK04439 169 TERLVLETERYLNSEEFKKRFPEVGEDIKVM-GL--RNG-D-----EI-TLTIAMALVDRYVNDVDEYFEVKEEVKEKVE 238 (399)
T ss_pred HHHHHHHHHHHhcCcchhhcCCCcCCCeEEE-EE--EcC-C-----EE-EEEEEhHHhhhhcCCHHHHHHHHHHHHHHHH
Confidence 34444444444322 4689999999974 23 332 1 11 22222 13333332 2245555555544
Q ss_pred ccccCCCCCCCCcEEEECCCCCe-------EEcCC---CCCcccCCceEEEecC-CCccccccccCcCCCC-Cccchhhh
Q 045474 216 KPVIPAHFLDEKTIFHLNPSGRF-------VIGGP---HGDAGLTGRKIIIDTY-GGWGAHGGGAFSGKDS-TKVDRSAA 283 (391)
Q Consensus 216 ~~v~~~~~~~~~t~~~INPtG~F-------viGGP---~~DtGLTGRKiiVDTY-GG~~~HGGGAfSGKDp-tKVDRSaA 283 (391)
.- + +.+.+.+..++||..-.- ++=|. +||.|.+||=.=|--- -++-|-+==|=+||.| +-|=.-=.
T Consensus 239 ~~-a-~~~~~~~v~v~iNt~D~~~~~~~YLTVtGTSAE~GDdG~VGRGNRvNGLITp~RPMSmEAaAGKNPv~HVGKIYN 316 (399)
T PRK04439 239 DL-A-QKYTDRDVEVHINTADDPDEGGVYLTVTGTSAEMGDDGSVGRGNRVNGLITPNRPMSMEAAAGKNPVNHVGKIYN 316 (399)
T ss_pred HH-H-HhhCCCceEEEEeCCCCCCCCcEEEEeceeehhccCCcccCcCcccCcccCCCCCccccccCCCCCcccchHHHH
Confidence 32 2 344555778999996642 22232 6899999995433211 1223444557899998 45666667
Q ss_pred hHHHHHHHHHHHh-ccccceEEEEEEEeccc--ceeEEEEeecCCCcCCHHH----HHHHHHHhC
Q 045474 284 YIVRQAAKSVVAS-GLARRCLVQVSYAIGVP--EPLSVFVDTYGTGKISDKD----ILALIKENF 341 (391)
Q Consensus 284 Y~AR~iAKniVaa-GlA~~c~vQlsYAIGv~--~Pvsi~V~tfgT~~~~~~~----i~~~v~~~F 341 (391)
.+|..||+.|++. .=.++|.|.|---||.| +|..+.+...-....+.++ +.+++.+.+
T Consensus 317 vlA~~iA~~i~~~v~gv~ev~V~llSqIG~PId~P~~a~v~v~~~~g~~~~~~~~~v~~I~~~~L 381 (399)
T PRK04439 317 VLANRIAREIYEEVEGVKEVYVRLLSQIGKPIDEPLVASIQVIPEDGVLISDVEKEVEEIVDEEL 381 (399)
T ss_pred HHHHHHHHHHHHhcCCceEEEEEEeccCCCcCCCCeEEEEEEecCCCCChHHHHHHHHHHHHHHH
Confidence 8899999999984 23779999999999976 7887777765332233333 444444443
No 12
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=98.93 E-value=2.1e-07 Score=95.01 Aligned_cols=304 Identities=21% Similarity=0.276 Sum_probs=188.3
Q ss_pred CCCCCCchhhhhHHHHHHHHH----hhc---------CCCCcEEEEEeee--------eCeEEEEEEEeecc---cccHH
Q 045474 11 VNEGHPDKLCDQISDAILDAC----LEQ---------DPESKVACETCAK--------TNMVMVFGEITTKA---KVDYE 66 (391)
Q Consensus 11 V~eGHPDKicDqISDaILDa~----L~~---------Dp~arVA~E~~v~--------~~~v~i~GEitt~a---~vd~~ 66 (391)
=+-||||-|||-|++++=-++ |++ |+---||-++.-+ .=.|+++|..|+.. .+++.
T Consensus 25 KGiGHPDtIcD~iaE~vS~~Ls~~Yl~~fG~ILHHN~DK~llvgG~s~p~fGGG~vi~Pi~ii~~GRAt~~~~~~~iPv~ 104 (396)
T PF01941_consen 25 KGIGHPDTICDGIAEAVSRALSRYYLERFGAILHHNTDKVLLVGGRSEPKFGGGEVIEPIYIILGGRATKEVGGEKIPVD 104 (396)
T ss_pred cCCCCChHHHHHHHHHHHHHHHHHHHHHhCCeeccccccceEEccEEeccCCCceeeeeEEEEEecceeeccCCeeccHH
Confidence 367999999999999875443 322 6666666665433 23578899988864 67888
Q ss_pred HHHHHHHHhcCCCC-CCCCCCCCc-eEEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHH
Q 045474 67 KVVRDTCRGIGFVS-ADVGLDADK-CKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVL 144 (391)
Q Consensus 67 ~ivr~~i~~IGY~~-~~~gfd~~~-~~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~l 144 (391)
+|+.++.|+ |=+ .--.+|.+. ..|...+.+-|+|+..-..+. ..-.+|-|-.+..||| ||+ -
T Consensus 105 ~Ia~~aak~--~l~~~l~~lD~e~hv~i~~~i~~GS~dL~dvf~r~----~~vp~ANDTS~gVGyA--------PlS--~ 168 (396)
T PF01941_consen 105 EIAIEAAKE--WLRENLRFLDPERHVIIDCRIGPGSPDLVDVFERG----KKVPLANDTSFGVGYA--------PLS--E 168 (396)
T ss_pred HHHHHHHHH--HHHHhcccCCccccEEEEEeeCCCChHHHHHhccc----ccccccCCccceeccC--------Ccc--H
Confidence 887666555 211 123356553 678888999999998776642 1146899999999996 443 2
Q ss_pred HHHHHHHHHHHHHc----CCCCcccCCceeeEEEEEecCCCcceeeEE--eEEEEeeecCCCCC-HHHHHHHHHHhhccc
Q 045474 145 ATKLGARLTEVRKN----KTCPWLRPDGKTQVTVEYRNEGGAMVPQRV--HTVLISTQHDETVT-KEQISEDLKEHVIKP 217 (391)
Q Consensus 145 Ah~L~~~l~~~Rk~----g~~~~l~pD~KtQVtv~Y~~~~g~~~p~rv--~tivvS~QH~~~v~-~~~l~~~i~e~Vi~~ 217 (391)
.-+|+..+++.-.+ ..+||.+.|-|.-- + ++. . -+.+ -.-.|| .+-.+.+ .-+.++.+++.+-.
T Consensus 169 ~E~~Vl~~Er~lns~~fk~~~p~~GeDiKVMG-~--R~g-~---~i~LTvA~a~v~-r~v~~~~~Y~~~k~~v~~~v~~- 239 (396)
T PF01941_consen 169 TEKLVLETERYLNSPEFKKKFPEVGEDIKVMG-L--REG-D---KITLTVAMAFVD-RYVSSLDEYFERKEEVKEEVED- 239 (396)
T ss_pred HHHHHHHHHHHhccccccccCCCcCCCeEEEE-E--EeC-C---EEEEEEEhhhhh-hhcCCHHHHHHHHHHHHHHHHH-
Confidence 44454444443322 45899999999742 3 332 1 1221 111111 2222222 12444445444333
Q ss_pred ccCCCCCCCCcEEEECCCCCeEEcCC----------CCCcccCCceEEEecC-CCccccccccCcCCCC-CccchhhhhH
Q 045474 218 VIPAHFLDEKTIFHLNPSGRFVIGGP----------HGDAGLTGRKIIIDTY-GGWGAHGGGAFSGKDS-TKVDRSAAYI 285 (391)
Q Consensus 218 v~~~~~~~~~t~~~INPtG~FviGGP----------~~DtGLTGRKiiVDTY-GG~~~HGGGAfSGKDp-tKVDRSaAY~ 285 (391)
.+.+ +.+.+..++||+.-.--.||+ +||.|.+||=.=|--- -++-|-+==|-+||.| +-|=.-=..+
T Consensus 240 ~a~~-~~~~~v~v~iNt~D~~~~~~~YLTvtGTSAE~GDdG~VGRGNRvNGLITp~RPMSmEAaAGKNPv~HVGKIYNvl 318 (396)
T PF01941_consen 240 YAAK-YTDRDVEVHINTADDPEEGGVYLTVTGTSAEMGDDGSVGRGNRVNGLITPNRPMSMEAAAGKNPVNHVGKIYNVL 318 (396)
T ss_pred HHHH-hcCCceEEEEECCCCCCCCcEEEEeceeeccccCCcccCcccccccccCCCCCCcccccCCCCCcchhhHHHHHH
Confidence 3332 235667899998764322332 6899999995433211 1333555668899998 4566667889
Q ss_pred HHHHHHHHHHh-ccccceEEEEEEEeccc--ceeEEEEeecCCCcCCHH----HHHHHHHHh
Q 045474 286 VRQAAKSVVAS-GLARRCLVQVSYAIGVP--EPLSVFVDTYGTGKISDK----DILALIKEN 340 (391)
Q Consensus 286 AR~iAKniVaa-GlA~~c~vQlsYAIGv~--~Pvsi~V~tfgT~~~~~~----~i~~~v~~~ 340 (391)
|..+|+.|++. .=.++|.|.|-=-||.| +|..+.|.......+.-+ ++.+++.+.
T Consensus 319 A~~iA~~I~~~v~gv~ev~V~llSqIG~PId~P~~~~v~i~~~~~~~~~~~~~~v~~Ii~~~ 380 (396)
T PF01941_consen 319 ANEIAQRIYEEVDGVEEVYVRLLSQIGKPIDEPQIASVQIIPEDGVLLEDVEKEVEEIIDEE 380 (396)
T ss_pred HHHHHHHHHHhcCCcceEEEEEccccCCCCCCCeEEEEEEecCCCCchHHHHHHHHHHHHHH
Confidence 99999999984 23568999988889954 888887777655443333 444554443
No 13
>COG1812 MetK Archaeal S-adenosylmethionine synthetase [Amino acid transport and metabolism]
Probab=98.18 E-value=0.00012 Score=74.50 Aligned_cols=289 Identities=21% Similarity=0.282 Sum_probs=165.1
Q ss_pred CCCCCCchhhhhHHHHHHHHH----hhc---------CCCCcEEEEE--------eeeeCeEEEEEEEeec---ccccHH
Q 045474 11 VNEGHPDKLCDQISDAILDAC----LEQ---------DPESKVACET--------CAKTNMVMVFGEITTK---AKVDYE 66 (391)
Q Consensus 11 V~eGHPDKicDqISDaILDa~----L~~---------Dp~arVA~E~--------~v~~~~v~i~GEitt~---a~vd~~ 66 (391)
=+-||||-|||-|+.+|=-++ |+. |.--=|+-+. ++..=.|++.|.-|.. ..+++.
T Consensus 25 KGlGHPDsiaDgiAE~vsr~Ls~~YlerfG~IlHHN~Dk~~ivgG~s~p~FGGGevi~PIyIll~GRAt~~~~g~~ip~~ 104 (400)
T COG1812 25 KGLGHPDSIADGIAEAVSRALSKYYLERFGVILHHNTDKVQIVGGQSAPKFGGGEVIEPIYILLSGRATKEVEGVEIPVG 104 (400)
T ss_pred cCCCCChhHHHHHHHHHHHHHHHHHHHHhCceeccccceeEEEcccccccCCCcceeeeEEEEEecceeeeecCeeccch
Confidence 367999999999988875543 322 2211222211 1222236677776543 346666
Q ss_pred HHHHHHHHhcCCCC-CCCCCCCCce-EEEEeeccCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchHHH
Q 045474 67 KVVRDTCRGIGFVS-ADVGLDADKC-KVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTLVL 144 (391)
Q Consensus 67 ~ivr~~i~~IGY~~-~~~gfd~~~~-~v~~~i~~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i~l 144 (391)
.|+-++.++ |=. .---+|.+++ .+...|.+-|.|+..--.+.. .+-..|-|...+.||| ||+.
T Consensus 105 ~ia~~AAk~--yLr~~~r~LD~E~~Viid~rig~GS~dL~dvf~~~~---~~VplANDTSfgVG~A--------PLs~-- 169 (400)
T COG1812 105 SIAIKAAKE--YLRENLRNLDVENHVIIDVRIGQGSVDLVDVFERAK---EEVPLANDTSFGVGFA--------PLSE-- 169 (400)
T ss_pred HHHHHHHHH--HHHhhcccCCccccEEEEeeccCCchhHHHHHhhcc---cCCcccccccceeccC--------CCcH--
Confidence 665444443 211 1123566654 566778888999876544321 1235899999999997 5543
Q ss_pred HHHHHHHHHHH----HHcCCCCcccCCceeeEEEEEecCCCcceeeEEeEEEEeeecCCCCCH-HHHHHHHHHhhccccc
Q 045474 145 ATKLGARLTEV----RKNKTCPWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTK-EQISEDLKEHVIKPVI 219 (391)
Q Consensus 145 Ah~L~~~l~~~----Rk~g~~~~l~pD~KtQVtv~Y~~~~g~~~p~rv~tivvS~QH~~~v~~-~~l~~~i~e~Vi~~v~ 219 (391)
..+|+...+.. --...+|..+.|-|.-. ++ +++. .-.+|.+-+||-+ -++++. -+.++.++++|-+-
T Consensus 170 tErlV~etEr~lns~~~k~~~P~vGeDIKVMg-lR--~~~~--i~LTIa~a~V~~~-v~~~~~Y~~~ke~v~~~Vedl-- 241 (400)
T COG1812 170 TERLVLETERYLNSPEFKKKLPAVGEDIKVMG-LR--EGDE--ISLTIAAALVDKY-VEDIDEYIEVKEEVRKHVEDL-- 241 (400)
T ss_pred HHHHHHHHHHHhcChhhcccCCCcCCceEEEE-Ee--cCCe--EEEEEehHHHHHh-hcCHHHHHHHHHHHHHHHHHH--
Confidence 34444333332 22356899999999853 43 2211 2345555555543 444432 24455555554432
Q ss_pred CCCCCCCCcEEEECCCCCeEEc-------C---CCCCcccCCceEEEecC-CCccccccccCcCCCCC-ccchhhhhHHH
Q 045474 220 PAHFLDEKTIFHLNPSGRFVIG-------G---PHGDAGLTGRKIIIDTY-GGWGAHGGGAFSGKDST-KVDRSAAYIVR 287 (391)
Q Consensus 220 ~~~~~~~~t~~~INPtG~FviG-------G---P~~DtGLTGRKiiVDTY-GG~~~HGGGAfSGKDpt-KVDRSaAY~AR 287 (391)
..+.-+.+-+.+||..-..--| | -+||.|.+||=.=+--- -.+-|-.==|-|||.|. -|=.-=..+|-
T Consensus 242 A~~it~~~v~v~iNtaD~~e~~~~YlTvTGTSaE~GDdGsVGRGNR~nGLITp~RpmSmEAaaGKNPvnHVGKiYN~La~ 321 (400)
T COG1812 242 ASEITDREVEVYINTADDPERGSVYLTVTGTSAEQGDDGSVGRGNRVNGLITPNRPMSMEAAAGKNPVNHVGKIYNVLAN 321 (400)
T ss_pred HhhhhccceEEEEecccccccCeEEEEeccchhhhCCCcccccccccccccCCCCCcccccccCCCchhhhHHHHHHHHH
Confidence 1222234456777765443222 2 47899999995432211 12234445688999985 35555566788
Q ss_pred HHHHHHHHhc-cccceEEEEEEEeccc--ce--eEEEEee
Q 045474 288 QAAKSVVASG-LARRCLVQVSYAIGVP--EP--LSVFVDT 322 (391)
Q Consensus 288 ~iAKniVaaG-lA~~c~vQlsYAIGv~--~P--vsi~V~t 322 (391)
.||+.|+.+= =.++|.|+|-=-||.| +| +++.|-+
T Consensus 322 ~iA~~I~~ev~~v~evyv~ilsqIGkPId~P~~~~vqvi~ 361 (400)
T COG1812 322 QIANEIVEEVPGVEEVYVRILSQIGKPIDEPKVASVQVIT 361 (400)
T ss_pred HHHHHHHHhcCCcceEEEehhhhcCCcCCCCceEEEEEEe
Confidence 8888888653 2688999888889953 45 5556655
No 14
>COG1325 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=61.93 E-value=12 Score=34.53 Aligned_cols=51 Identities=22% Similarity=0.298 Sum_probs=38.5
Q ss_pred eEEEEEEEecccceeEEEEeecCCCcCCHHHHHHHHHHhCCCChHHHHHHhccccccccccccccccccCCCC
Q 045474 302 CLVQVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQKTAACGHFGRD 374 (391)
Q Consensus 302 c~vQlsYAIGv~~Pvsi~V~tfgT~~~~~~~i~~~v~~~Fdl~p~~Ii~~L~L~~P~~~iY~~ta~yGHFGr~ 374 (391)
|.+|..| +++.|-.+.| -++++..+++...|+..+ +- -...+.+-||||++
T Consensus 3 ~~~~~~~-------i~~rv~iHaT--ED~~kV~eAL~~~~p~~~----------~~---e~ev~~aeGhyGNp 53 (149)
T COG1325 3 GMMQSHY-------IEIRVIIHAT--EDEEKVLEALENFFPEAI----------DV---EIEVTEAEGHYGNP 53 (149)
T ss_pred Cccccce-------EEEEEEEEcc--CCHHHHHHHHHHhcCccc----------cc---ceEEEEeecccCCe
Confidence 6677777 4666667777 678899999999998875 11 35677889999975
No 15
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=56.85 E-value=84 Score=30.58 Aligned_cols=38 Identities=16% Similarity=0.183 Sum_probs=31.2
Q ss_pred hhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEEee
Q 045474 281 SAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFVDT 322 (391)
Q Consensus 281 SaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V~t 322 (391)
++.|..||+-+-.-|+++++++++. +|...|+.+.-+-
T Consensus 204 ~~~y~l~YL~~~~Ka~~ls~~V~l~----~~~~~Pl~l~y~i 241 (259)
T TIGR00590 204 TLTFAIKYLNLFTKATPLSDRVTLS----MSNDVPLVVEYKI 241 (259)
T ss_pred eeeeeHHHHHHhhhhccCCCeEEEE----EcCCCCEEEEEEe
Confidence 4789999998888889999987665 5688899888763
No 16
>PRK11023 outer membrane lipoprotein; Provisional
Probab=52.25 E-value=29 Score=32.44 Aligned_cols=57 Identities=16% Similarity=0.238 Sum_probs=38.9
Q ss_pred chhhhh-HHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcC
Q 045474 17 DKLCDQ-ISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIG 77 (391)
Q Consensus 17 DKicDq-ISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IG 77 (391)
+...|. |+..|-.+++..+.-.--.+++-+.+|.|++.|+++. ... +-+.++.+.+.
T Consensus 121 ~~~~D~~It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~-~e~---~~a~~iA~~v~ 178 (191)
T PRK11023 121 TASKDTWITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQ-REA---KAAADIASRVS 178 (191)
T ss_pred cccCcHHHHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCH-HHH---HHHHHHHhcCC
Confidence 455554 7778888888876666667788888999999999964 322 23445555543
No 17
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=47.71 E-value=32 Score=30.89 Aligned_cols=40 Identities=13% Similarity=0.150 Sum_probs=33.5
Q ss_pred hhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeec
Q 045474 20 CDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTK 60 (391)
Q Consensus 20 cDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~ 60 (391)
..+|+|+|+.++-++...+.- +.+-+.+|.|.+.|.+.+.
T Consensus 24 ~~~~~~~i~~~i~~~~~~~~~-i~V~v~~G~v~l~G~v~s~ 63 (147)
T PRK11198 24 NEDAADALKEHISKQGLGDAD-VNVQVEDGKATVSGDAASQ 63 (147)
T ss_pred hHHHHHHHHHHHHhcCCCcCC-ceEEEeCCEEEEEEEeCCH
Confidence 489999999998888765554 6788889999999998875
No 18
>PF02980 FokI_C: Restriction endonuclease FokI, catalytic domain; InterPro: IPR004233 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. Thie entry represents the type IIS restriction endonuclease FokI (3.1.21.4 from EC), which is a member of an unusual class of bipartite restriction enzymes that recognise a specific DNA sequence and cleave DNA nonspecifically a short distance away from that sequence []. FokI contains amino- and carboxy-terminal domains corresponding to the DNA-recognition (IPR004234 from INTERPRO) and cleavage functions, respectively. The catalytic domain contains only a single catalytic centre, raising the question of how monomeric FokI manages to cleave both DNA strands. The catalytic domain is sequestered in a 'piggyback' fashion by the recognition domain [].; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system; PDB: 1FOK_A 2FOK_B.
Probab=45.49 E-value=20 Score=32.91 Aligned_cols=37 Identities=16% Similarity=0.146 Sum_probs=27.3
Q ss_pred cchhhhhHHHHHHHHHHHhccccceEEEEEEEecccc
Q 045474 278 VDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPE 314 (391)
Q Consensus 278 VDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~ 314 (391)
++=++==+|||||.-++..||+.+....+.+-+|..+
T Consensus 77 ~EgTSDKYaR~I~~wL~k~glv~~~~k~vt~~~~~~~ 113 (142)
T PF02980_consen 77 WEGTSDKYARMICGWLKKVGLVEQKTKKVTRTIGGRK 113 (142)
T ss_dssp ---HHHHHHHHHHHHHHHTTSEEE--EEEE-BTTBTT
T ss_pred cccchHHHHHHHHHHHHHhchheecceEEEeeccCcc
Confidence 3556777899999999999999999999988877654
No 19
>PF14084 DUF4264: Protein of unknown function (DUF4264)
Probab=43.23 E-value=6.9 Score=30.30 Aligned_cols=39 Identities=28% Similarity=0.349 Sum_probs=26.7
Q ss_pred cCChhhhhccCCCCCCCCCCCCCCcceeeeeEecCCCCCCCCchH
Q 045474 98 EQSPEIAQSVHGNLSKRPEEIGAGDQGHMFGYATDETPELMPLTL 142 (391)
Q Consensus 98 ~QS~dIa~gV~~~~~~~~~~~GAGDQGimfGYA~~ET~~~MPl~i 142 (391)
+.++|+-+-||.- . ----|+++|||.+-||-++=|-++|
T Consensus 11 ~~~~dlYKvVDfL-N-----ktLK~~~lmFGLs~d~~~~k~vitI 49 (52)
T PF14084_consen 11 EYNDDLYKVVDFL-N-----KTLKDKNLMFGLSKDEKEEKMVITI 49 (52)
T ss_pred cCCccHHHHHHHH-h-----hhhhhccEEEEEeecCcCCEEEEEE
Confidence 4567777777731 1 1234899999999987777675544
No 20
>cd01269 PLX Pollux (PLX) Phosphotyrosine-binding (PTB) domain. Pollux (PLX) Phosphotyrosine-binding (PTB) domain. PLX is calmodulin-binding protein containing a TBC domain, which is conserved from yeast to man, but it only has an N-terminal PTB domain in mammals. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=42.47 E-value=64 Score=29.25 Aligned_cols=43 Identities=14% Similarity=0.119 Sum_probs=32.9
Q ss_pred EEEEEEEeecccccHHHHHHHHHHhcCCCCCCCCCCCCceEEE
Q 045474 51 VMVFGEITTKAKVDYEKVVRDTCRGIGFVSADVGLDADKCKVL 93 (391)
Q Consensus 51 v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~~~gfd~~~~~v~ 93 (391)
|+..|.+|-.-+--.+.++++.|++.++.+....-+.+|+..+
T Consensus 6 ~~~~~~~~~~~~~~~~~li~e~I~K~~~~~~~kr~~nrtm~~~ 48 (129)
T cd01269 6 VLYCGRVTVTHKKAPSSLIDDCIEKFSLHEQQRLKDNRTMLFQ 48 (129)
T ss_pred EEEEeeEEEeeccCChHHHHHHHHHhhhhhhhhccCCcEEEEE
Confidence 6678888765455568899999999999987777777775443
No 21
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=37.20 E-value=47 Score=26.98 Aligned_cols=57 Identities=25% Similarity=0.413 Sum_probs=39.8
Q ss_pred eeEEeEEEEeeecCCCCCHHHHHHHHHHhhc-ccc-cCC---CCCCCCcEEEECCCCCeEEcC
Q 045474 185 PQRVHTVLISTQHDETVTKEQISEDLKEHVI-KPV-IPA---HFLDEKTIFHLNPSGRFVIGG 242 (391)
Q Consensus 185 p~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi-~~v-~~~---~~~~~~t~~~INPtG~FviGG 242 (391)
-.+|.+||-|..-.-.++++++...+ +.+- +|- .|. .+-+++..++|=+||++++-|
T Consensus 3 ~~~i~NIva~~~l~~~idL~~la~~~-~~~~YePe~fpgl~~r~~~p~~t~~IF~sGki~itG 64 (86)
T PF00352_consen 3 DFKIVNIVASFDLPFEIDLEELAEEL-ENVEYEPERFPGLIYRLRNPKATVLIFSSGKIVITG 64 (86)
T ss_dssp EEEEEEEEEEEE-SSEB-HHHHHHHS-TTEEEETTTESSEEEEETTTTEEEEEETTSEEEEEE
T ss_pred ccEEEEEEEEEECCCccCHHHHHhhc-cCcEEeeccCCeEEEeecCCcEEEEEEcCCEEEEEe
Confidence 37899999999999999999998877 3332 221 121 112457889999999999866
No 22
>PF04208 MtrA: Tetrahydromethanopterin S-methyltransferase, subunit A ; InterPro: IPR013340 This domain is mostly found in N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit A (MtrA) in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. 5-methyl-5,6,7,8-tetrahydromethanopterin + 2-mercaptoethanesulphonate = 5,6,7,8-tetrahydromethanopterin + 2-(methylthio)ethanesulphonate. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase (encoded by subunit A) is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of methyl-coenzyme M by another enzyme, methyl-coenzyme M reductase. In some organisms this domain is found at the N-terminal region of what appears to be a fusion of the MtrA and MtrF proteins [, ]. The function of these proteins is unknown, though it is likely that they are involved in C1 metabolism. ; GO: 0008168 methyltransferase activity, 0030269 tetrahydromethanopterin S-methyltransferase activity
Probab=35.99 E-value=45 Score=31.66 Aligned_cols=41 Identities=29% Similarity=0.370 Sum_probs=32.9
Q ss_pred cCCCCcEEEEEeeeeCe-------EEEEEEEeecccccHHHHHHHHHHh
Q 045474 34 QDPESKVACETCAKTNM-------VMVFGEITTKAKVDYEKVVRDTCRG 75 (391)
Q Consensus 34 ~Dp~arVA~E~~v~~~~-------v~i~GEitt~a~vd~~~ivr~~i~~ 75 (391)
-||.|+||+=||.++.. .-|+|-..|. .+=+++++++++.+
T Consensus 18 Gdp~S~VAV~TL~S~~~~~~l~~gaAI~G~~~TE-NlGIEKvI~NvisN 65 (176)
T PF04208_consen 18 GDPESPVAVCTLGSHLLQAPLDAGAAIAGPCKTE-NLGIEKVIANVISN 65 (176)
T ss_pred CCCCCCEEEEECccccchhhhhcCceeeeccccc-ccCHHHHHHHHhcC
Confidence 58999999999988665 4566766565 77899999999765
No 23
>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=35.46 E-value=1.3e+02 Score=28.15 Aligned_cols=82 Identities=18% Similarity=0.297 Sum_probs=59.9
Q ss_pred eEEeEEEEeeecCCCCCHHHHHHHHHHhhccc-ccCC---CCCCCCcEEEECCCCCeEEcCCCCCcccCCceEEEecCCC
Q 045474 186 QRVHTVLISTQHDETVTKEQISEDLKEHVIKP-VIPA---HFLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGG 261 (391)
Q Consensus 186 ~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~-v~~~---~~~~~~t~~~INPtG~FviGGP~~DtGLTGRKiiVDTYGG 261 (391)
++|.+||-|++-...+++++|...+..---.| -+|. .+-+++..++|=.||++++=|
T Consensus 2 ~~I~NvVas~~l~~~ldL~~la~~~~n~eY~P~~fpgli~Rl~~Pk~t~lIF~SGKiv~tG------------------- 62 (174)
T cd04518 2 LKIENIVASVDLGQELDLEKVAAELPNAEYNPDQFPGLVYRLEDPKIAALIFRSGKMVCTG------------------- 62 (174)
T ss_pred cEEEEEEEEEEcCCeecHHHHHhhCCCcEECCCcCcEEEEEccCCcEEEEEECCCeEEEEc-------------------
Confidence 47899999999999999999987655533333 1222 112456789999999999755
Q ss_pred ccccccccCcCCCCCccchhhhhHHHHHHHHHHHhcccc
Q 045474 262 WGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLAR 300 (391)
Q Consensus 262 ~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA~ 300 (391)
.|--..+..+++.++|-|-..|.-.
T Consensus 63 --------------aks~~~a~~a~~~~~~~L~~~g~~~ 87 (174)
T cd04518 63 --------------AKSVEDLHRAVKEIIKKLKDYGIKV 87 (174)
T ss_pred --------------cCCHHHHHHHHHHHHHHHHhcCCCc
Confidence 4555677888999999998887543
No 24
>PRK00394 transcription factor; Reviewed
Probab=32.17 E-value=1.7e+02 Score=27.34 Aligned_cols=81 Identities=22% Similarity=0.316 Sum_probs=56.3
Q ss_pred eEEeEEEEeeecCCCCCHHHHHHHHHHhhccc-ccCC---CCCCCCcEEEECCCCCeEEcCCCCCcccCCceEEEecCCC
Q 045474 186 QRVHTVLISTQHDETVTKEQISEDLKEHVIKP-VIPA---HFLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGG 261 (391)
Q Consensus 186 ~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~-v~~~---~~~~~~t~~~INPtG~FviGGP~~DtGLTGRKiiVDTYGG 261 (391)
++|.+||-|++-...+++++|...+..--=.| .+|. .+-+++..++|=.||++++=|
T Consensus 1 i~i~NvVas~~l~~~ldL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIf~sGKiv~tG------------------- 61 (179)
T PRK00394 1 IKIENIVASTDLGQELDLEKVAEDLPNAEYNPEQFPGLVYRLEDPKIAALIFRSGKVVCTG------------------- 61 (179)
T ss_pred CEEEEEEEEEEcCCCcCHHHHHhhCCCceeCcccCceEEEEecCCceEEEEEcCCcEEEEc-------------------
Confidence 36889999999999999999987654322222 1222 112457889999999999755
Q ss_pred ccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccc
Q 045474 262 WGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLA 299 (391)
Q Consensus 262 ~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA 299 (391)
.|--..+.-+++.+++.|-..|.-
T Consensus 62 --------------a~S~~~a~~a~~~~~~~l~~~g~~ 85 (179)
T PRK00394 62 --------------AKSVEDLHEAVKIIIKKLKELGIK 85 (179)
T ss_pred --------------cCCHHHHHHHHHHHHHHHHHcCCC
Confidence 233346777788888888777754
No 25
>KOG3447 consensus Mitochondrial/chloroplast ribosomal S17-like protein [Translation, ribosomal structure and biogenesis]
Probab=29.80 E-value=19 Score=33.04 Aligned_cols=12 Identities=50% Similarity=0.584 Sum_probs=11.2
Q ss_pred cCCceEEEecCC
Q 045474 249 LTGRKIIIDTYG 260 (391)
Q Consensus 249 LTGRKiiVDTYG 260 (391)
+||||+.+|||-
T Consensus 95 vTGkk~~~~ty~ 106 (150)
T KOG3447|consen 95 VTGKKCAGDTYL 106 (150)
T ss_pred CcCccccCcchh
Confidence 799999999995
No 26
>PRK11023 outer membrane lipoprotein; Provisional
Probab=28.27 E-value=1e+02 Score=28.70 Aligned_cols=43 Identities=19% Similarity=0.238 Sum_probs=29.9
Q ss_pred hhhhh-HHHHHHHHHhhcCCCCc--EEEEEeeeeCeEEEEEEEeecc
Q 045474 18 KLCDQ-ISDAILDACLEQDPESK--VACETCAKTNMVMVFGEITTKA 61 (391)
Q Consensus 18 KicDq-ISDaILDa~L~~Dp~ar--VA~E~~v~~~~v~i~GEitt~a 61 (391)
++-|+ |+-.|..+ |.+||.-+ -.+.+-+.+|.|.+.|++.+..
T Consensus 44 ~~dD~~i~~~V~~a-L~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~ 89 (191)
T PRK11023 44 QVDDGTLELRVNNA-LSKDEQIKKEARINVTAYQGKVLLTGQSPNAE 89 (191)
T ss_pred eehhHHHHHHHHHH-HhhCcccCcCceEEEEEECCEEEEEEEeCCHH
Confidence 44444 44444454 45577554 4688889999999999998853
No 27
>PRK10568 periplasmic protein; Provisional
Probab=26.22 E-value=1.3e+02 Score=28.26 Aligned_cols=52 Identities=13% Similarity=0.242 Sum_probs=30.8
Q ss_pred HHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcC
Q 045474 23 ISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIG 77 (391)
Q Consensus 23 ISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IG 77 (391)
|+..|-.+++..+.-..-.+.+-+.+|.|.+.|++.+.+. ...+.++.+++-
T Consensus 61 I~~~v~~~L~~~~~i~~~~I~V~v~~G~V~L~G~V~s~~~---~~~a~~ia~~v~ 112 (203)
T PRK10568 61 ITAKVKAALVDHDNIKSTDISVKTHQKVVTLSGFVESQAQ---AEEAVKVAKGVE 112 (203)
T ss_pred HHHHHHHHHHhCCCCCCCceEEEEECCEEEEEEEeCCHHH---HHHHHHHHHhCC
Confidence 4445555555433233345677778999999999987532 223444445543
No 28
>PRK14053 methyltransferase; Provisional
Probab=25.98 E-value=88 Score=30.15 Aligned_cols=42 Identities=24% Similarity=0.382 Sum_probs=33.8
Q ss_pred hcCCCCcEEEEEeeeeCe----EEEEEEEeecccccHHHHHHHHHHh
Q 045474 33 EQDPESKVACETCAKTNM----VMVFGEITTKAKVDYEKVVRDTCRG 75 (391)
Q Consensus 33 ~~Dp~arVA~E~~v~~~~----v~i~GEitt~a~vd~~~ivr~~i~~ 75 (391)
--||+|+||+=||.++-. .-|.|-..|. .+=+++++++++.+
T Consensus 17 vG~~~S~VAVvTL~S~~~~~~gaAI~G~c~TE-NlGIEKvI~NvisN 62 (194)
T PRK14053 17 VGNPESRIAVVTLASSIESFPEAAIWGSSKTE-NLGVEKIIVNVISN 62 (194)
T ss_pred eCCCCCcEEEEEccccccccCCceEEeecccc-ccCHHHHHHHhhcC
Confidence 348999999999999754 5667776665 78899999999765
No 29
>PF02171 Piwi: Piwi domain; InterPro: IPR003165 This domain is found in the stem cell self-renewal protein Piwi and its relatives in Drosophila melanogaster []. It has been found in the C-terminal of a number of proteins which also contain the PAZ domain (IPR003100 from INTERPRO) in their central region, for example the Argonaute proteins. Several of these proteins have been implicated in the development and maintenance of stem cells through the RNA-mediated gene-quelling mechanisms associated with the protein DICER. ; GO: 0005515 protein binding; PDB: 4F1N_B 3LUH_B 4EI1_A 3QX8_A 3LUC_C 3LUJ_B 3LUD_B 3QX9_A 3LUG_B 3LUK_B ....
Probab=24.97 E-value=56 Score=31.56 Aligned_cols=22 Identities=32% Similarity=0.336 Sum_probs=16.4
Q ss_pred CCCCCCchHHHHHHHHHHHHHH
Q 045474 134 TPELMPLTLVLATKLGARLTEV 155 (391)
Q Consensus 134 T~~~MPl~i~lAh~L~~~l~~~ 155 (391)
.+--+|.|+.+||+|++|..+.
T Consensus 279 ~~~~lP~p~~yA~~~a~~~~~~ 300 (302)
T PF02171_consen 279 GPISLPAPLYYAHKLAKRGRNN 300 (302)
T ss_dssp S--SS-HHHHHHHHHHHHHHHH
T ss_pred CCCccCHHHHHHHHHHHHHHhh
Confidence 4556999999999999998653
No 30
>KOG2978 consensus Dolichol-phosphate mannosyltransferase [General function prediction only]
Probab=24.85 E-value=75 Score=31.13 Aligned_cols=37 Identities=32% Similarity=0.557 Sum_probs=31.4
Q ss_pred EEEEEecccceeEEEEeecCCCcCCHHHHHHHHHHhCC
Q 045474 305 QVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFD 342 (391)
Q Consensus 305 QlsYAIGv~~Pvsi~V~tfgT~~~~~~~i~~~v~~~Fd 342 (391)
|--|+||. -|+++..-++|++|++-.+|.+-++..+-
T Consensus 197 ~~~y~IgE-vPitFvdR~~GeSKLg~~eIv~ylk~l~~ 233 (238)
T KOG2978|consen 197 QHGYTIGE-VPITFVDRTYGESKLGGKEIVQYLKGLLY 233 (238)
T ss_pred ccCceEee-cceEEEeeccccccccHHHHHHHHHHHhh
Confidence 45699996 49999999999999999999988876543
No 31
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=24.03 E-value=74 Score=32.48 Aligned_cols=85 Identities=22% Similarity=0.368 Sum_probs=57.3
Q ss_pred CchhhhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCCCCCCCCCCCceEEEEe
Q 045474 16 PDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFVSADVGLDADKCKVLVN 95 (391)
Q Consensus 16 PDKicDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~~~~~gfd~~~~~v~~~ 95 (391)
-|++.|-+.++||-+++.+..-..|.- +.-+|-++-.++.|..--+++-.-||.++++.||+-+-- ..++-++...
T Consensus 110 tdd~~~~~~~til~ay~~~~~~d~v~~--v~VGnEal~r~~~tasql~~~I~~vrsav~~agy~gpV~--T~dsw~~~~~ 185 (305)
T COG5309 110 TDDIHDAVEKTILSAYLPYNGWDDVTT--VTVGNEALNRNDLTASQLIEYIDDVRSAVKEAGYDGPVT--TVDSWNVVIN 185 (305)
T ss_pred ccchhhhHHHHHHHHHhccCCCCceEE--EEechhhhhcCCCCHHHHHHHHHHHHHHHHhcCCCCcee--ecccceeeeC
Confidence 378888998999999999877665542 222344555667777666777778999999999987521 1222222222
Q ss_pred eccCChhhhhccC
Q 045474 96 IEEQSPEIAQSVH 108 (391)
Q Consensus 96 i~~QS~dIa~gV~ 108 (391)
-||+.+..|
T Consensus 186 ----np~l~~~SD 194 (305)
T COG5309 186 ----NPELCQASD 194 (305)
T ss_pred ----ChHHhhhhh
Confidence 788888776
No 32
>PRK00964 tetrahydromethanopterin S-methyltransferase subunit A; Provisional
Probab=23.96 E-value=86 Score=30.87 Aligned_cols=42 Identities=29% Similarity=0.348 Sum_probs=33.2
Q ss_pred hcCCCCcEEEEEeeeeCe--------EEEEEEEeecccccHHHHHHHHHHh
Q 045474 33 EQDPESKVACETCAKTNM--------VMVFGEITTKAKVDYEKVVRDTCRG 75 (391)
Q Consensus 33 ~~Dp~arVA~E~~v~~~~--------v~i~GEitt~a~vd~~~ivr~~i~~ 75 (391)
--||+|.||+=||.++.. .-|+|-..|. .+=++++++++|.+
T Consensus 20 vGd~~SpVAV~Tl~S~~~~~~~~~agaAi~G~~~TE-NlGIEKvI~NvisN 69 (225)
T PRK00964 20 VGDPESPVAVVTLGSHLLDQPIIDAGAAISGPCHTE-NLGIEKVIANVISN 69 (225)
T ss_pred eCCCCCceEEEEccccccccchhhcCceeecccccc-cccHHHHHHHHhcC
Confidence 359999999999998765 3456666665 77899999999765
No 33
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors 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. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=23.95 E-value=3.8e+02 Score=24.87 Aligned_cols=81 Identities=19% Similarity=0.323 Sum_probs=55.7
Q ss_pred eEEeEEEEeeecCCCCCHHHHHHHHHHhhccc-ccCC---CCCCCCcEEEECCCCCeEEcCCCCCcccCCceEEEecCCC
Q 045474 186 QRVHTVLISTQHDETVTKEQISEDLKEHVIKP-VIPA---HFLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGG 261 (391)
Q Consensus 186 ~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~-v~~~---~~~~~~t~~~INPtG~FviGGP~~DtGLTGRKiiVDTYGG 261 (391)
++|.+||-|+.-.-.++++++...+..--=.| -+|. .+-+.+...+|=.||++++=|
T Consensus 2 ~~i~NvVas~~l~~~idL~~la~~~~n~~YePe~fpgli~R~~~P~~t~lIf~sGKivitG------------------- 62 (174)
T cd00652 2 PKIQNIVATVNLGCELDLRKIALAARNAEYNPKRFPGVIMRLREPKTTALIFSSGKMVITG------------------- 62 (174)
T ss_pred cEEEEEEEEEEcCCccCHHHHHhhCCCcEECCCccceEEEEcCCCcEEEEEECCCEEEEEe-------------------
Confidence 47899999999888999999977554322222 2222 112466788899999999754
Q ss_pred ccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccc
Q 045474 262 WGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLA 299 (391)
Q Consensus 262 ~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA 299 (391)
.|=-..+.-+++++++-|-..|.-
T Consensus 63 --------------aks~~~~~~a~~~~~~~L~~~g~~ 86 (174)
T cd00652 63 --------------AKSEEDAKLAARKYARILQKLGFP 86 (174)
T ss_pred --------------cCCHHHHHHHHHHHHHHHHHcCCC
Confidence 333456666788888888777644
No 34
>PLN00062 TATA-box-binding protein; Provisional
Probab=23.61 E-value=2.7e+02 Score=26.17 Aligned_cols=80 Identities=18% Similarity=0.285 Sum_probs=55.7
Q ss_pred eEEeEEEEeeecCCCCCHHHHHHHHHHhhccc-ccCC---CCCCCCcEEEECCCCCeEEcCCCCCcccCCceEEEecCCC
Q 045474 186 QRVHTVLISTQHDETVTKEQISEDLKEHVIKP-VIPA---HFLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGG 261 (391)
Q Consensus 186 ~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~-v~~~---~~~~~~t~~~INPtG~FviGGP~~DtGLTGRKiiVDTYGG 261 (391)
.+|.+||-|+.-.-.+++++|...+..--=.| .+|. .+-+.+..++|=.||++++=|
T Consensus 2 ~~I~NvVas~~l~~~idL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTG------------------- 62 (179)
T PLN00062 2 PTLQNIVSTVNLDCKLDLKKIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTG------------------- 62 (179)
T ss_pred cEEEEEEEEEEcCCcccHHHHHhhCCCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEe-------------------
Confidence 46889999999888999999976554322222 1232 112467789999999999755
Q ss_pred ccccccccCcCCCCCccchhhhhHHHHHHHHHHHhcc
Q 045474 262 WGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGL 298 (391)
Q Consensus 262 ~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGl 298 (391)
.|--..+..+++.++|-|-..|.
T Consensus 63 --------------aks~e~a~~a~~~~~~~L~~lg~ 85 (179)
T PLN00062 63 --------------AKSEHDSKLAARKYARIIQKLGF 85 (179)
T ss_pred --------------cCCHHHHHHHHHHHHHHHHHcCC
Confidence 33345666778888888877775
No 35
>PRK04964 hypothetical protein; Provisional
Probab=22.72 E-value=70 Score=25.87 Aligned_cols=31 Identities=39% Similarity=0.627 Sum_probs=20.4
Q ss_pred CCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCCC
Q 045474 117 EIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCP 162 (391)
Q Consensus 117 ~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~~ 162 (391)
+||.|||| |+|-+|..|-| .|.++..+..+|
T Consensus 14 ~IgSGd~g------------YiP~Ai~ca~k---~L~~IAad~~Lp 44 (66)
T PRK04964 14 EIGSGDLG------------YVPDALGCVLK---ALNEIAADEALP 44 (66)
T ss_pred HhcCCccc------------cCcHHHHHHHH---HHHHHhccccCC
Confidence 68999997 48998887755 344444433333
No 36
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors 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=22.47 E-value=2.9e+02 Score=25.82 Aligned_cols=81 Identities=16% Similarity=0.277 Sum_probs=55.9
Q ss_pred eEEeEEEEeeecCCCCCHHHHHHHHHHhhccc-ccCC---CCCCCCcEEEECCCCCeEEcCCCCCcccCCceEEEecCCC
Q 045474 186 QRVHTVLISTQHDETVTKEQISEDLKEHVIKP-VIPA---HFLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGG 261 (391)
Q Consensus 186 ~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~-v~~~---~~~~~~t~~~INPtG~FviGGP~~DtGLTGRKiiVDTYGG 261 (391)
.+|.+||-|+.-.-.++++++...+..--=.| .+|. .+-+.+..++|=.||++++=|
T Consensus 2 ~~I~NvVas~~l~~~idL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTG------------------- 62 (174)
T cd04516 2 PKIQNIVATVNLGCKLDLKKIALRARNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVCTG------------------- 62 (174)
T ss_pred CEEEEEEEEEEcCCeecHHHHHhhCCCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEe-------------------
Confidence 46889999999888999999987554422222 2222 123467788999999999744
Q ss_pred ccccccccCcCCCCCccchhhhhHHHHHHHHHHHhccc
Q 045474 262 WGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLA 299 (391)
Q Consensus 262 ~~~HGGGAfSGKDptKVDRSaAY~AR~iAKniVaaGlA 299 (391)
.|--.++..+++.+++-|-..|..
T Consensus 63 --------------aks~e~a~~a~~~i~~~L~~~g~~ 86 (174)
T cd04516 63 --------------AKSEDDSKLAARKYARIIQKLGFP 86 (174)
T ss_pred --------------cCCHHHHHHHHHHHHHHHHHcCCC
Confidence 233356777788999888777743
No 37
>PF07918 CAP160: CAP160 repeat; InterPro: IPR012418 This region featured in this family is repeated in spinach cold acclimation protein CAP160 (O50054 from SWISSPROT) CAP160 is induced during periods of drought stress; its precise function is unknown but it has been implicated in the stabilisation of membranes, cytoskeletal elements, and ribosomes. By acting as a compatible solute, it may reduce the toxic effects of cellular solutes that accumulate at high concentration []. Other members of this family are also induced by water stress, abscisic acid, and/or low temperature, such as desiccation-responsive protein 29B (Q04980 from SWISSPROT) and CDet11-24 protein (O23764 from SWISSPROT).
Probab=21.70 E-value=48 Score=22.55 Aligned_cols=10 Identities=70% Similarity=0.730 Sum_probs=8.2
Q ss_pred HHHHHHHhcc
Q 045474 289 AAKSVVASGL 298 (391)
Q Consensus 289 iAKniVaaGl 298 (391)
.|||+||+.|
T Consensus 14 ~AknvvaSKL 23 (27)
T PF07918_consen 14 SAKNVVASKL 23 (27)
T ss_pred HHHHHHHHhc
Confidence 4899999865
No 38
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=21.47 E-value=1.5e+02 Score=27.63 Aligned_cols=57 Identities=12% Similarity=0.171 Sum_probs=42.3
Q ss_pred eEEeEEEEeeecCCCCCHHHHHHHHHHhhcccccCC---CCCCCCcEEEECCCCCeEEcC
Q 045474 186 QRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPA---HFLDEKTIFHLNPSGRFVIGG 242 (391)
Q Consensus 186 ~rv~tivvS~QH~~~v~~~~l~~~i~e~Vi~~v~~~---~~~~~~t~~~INPtG~FviGG 242 (391)
++|.+||-|.+-...++++++...+..-.=.|.+|. .+-+.+...+|=.||++++=|
T Consensus 3 ~~i~Nvvas~~l~~~idL~~la~~l~n~eYeP~fpgli~R~~~Pk~t~lIF~sGKiviTG 62 (174)
T cd04517 3 ILIVNVVCQFSLRCHIDLRKLALAGRNVEYNPRYPKVTMRLREPRATASVWSSGKITITG 62 (174)
T ss_pred cEEEEEEEEEEcCCcccHHHHHhhCCCCEEeCCCCEEEEEecCCcEEEEEECCCeEEEEc
Confidence 578999999998889999999776655444553343 122467788999999999755
No 39
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=21.43 E-value=3.2e+02 Score=19.95 Aligned_cols=54 Identities=17% Similarity=0.194 Sum_probs=35.8
Q ss_pred hhhHHHHHHHHHhhcCCCCcEEEEEeeeeCeEEEEEEEeecccccHHHHHHHHHHhcCCC
Q 045474 20 CDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVDYEKVVRDTCRGIGFV 79 (391)
Q Consensus 20 cDqISDaILDa~L~~Dp~arVA~E~~v~~~~v~i~GEitt~a~vd~~~ivr~~i~~IGY~ 79 (391)
|.--+..|-.++.+.+-- -.+++-..++.+.|.+. ...++.++ +.+.|+++||+
T Consensus 9 C~~C~~~v~~~l~~~~GV--~~v~vd~~~~~v~v~~~---~~~~~~~~-i~~~i~~~Gy~ 62 (62)
T PF00403_consen 9 CEGCAKKVEKALSKLPGV--KSVKVDLETKTVTVTYD---PDKTSIEK-IIEAIEKAGYE 62 (62)
T ss_dssp SHHHHHHHHHHHHTSTTE--EEEEEETTTTEEEEEES---TTTSCHHH-HHHHHHHTTSE
T ss_pred cHHHHHHHHHHHhcCCCC--cEEEEECCCCEEEEEEe---cCCCCHHH-HHHHHHHhCcC
Confidence 445555666666665432 35677788899988653 22367766 77888999994
No 40
>PF06786 UPF0253: Uncharacterised protein family (UPF0253); InterPro: IPR009624 This is a group of proteins of unknown function.
Probab=21.36 E-value=79 Score=25.57 Aligned_cols=31 Identities=35% Similarity=0.657 Sum_probs=20.7
Q ss_pred CCCCCcceeeeeEecCCCCCCCCchHHHHHHHHHHHHHHHHcCCCC
Q 045474 117 EIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCP 162 (391)
Q Consensus 117 ~~GAGDQGimfGYA~~ET~~~MPl~i~lAh~L~~~l~~~Rk~g~~~ 162 (391)
+||.|||| |+|-.|..|-|- |.++..+..+|
T Consensus 14 ~IgSGd~g------------YiP~Ai~calk~---Ln~iAad~~Lp 44 (66)
T PF06786_consen 14 QIGSGDQG------------YIPDAIGCALKT---LNDIAADEALP 44 (66)
T ss_pred HhcCCccc------------cCcHHHHHHHHH---HHHHHcccccC
Confidence 68999997 489988877554 44444444443
No 41
>COG1608 Predicted archaeal kinase [General function prediction only]
Probab=21.10 E-value=1.4e+02 Score=29.92 Aligned_cols=55 Identities=11% Similarity=0.108 Sum_probs=33.2
Q ss_pred CCccchhhhhHHHHHHHHHHHhccccceEEEEEEEecccceeEEEEeecCC-CcCC-HHHHHHHHHHhC
Q 045474 275 STKVDRSAAYIVRQAAKSVVASGLARRCLVQVSYAIGVPEPLSVFVDTYGT-GKIS-DKDILALIKENF 341 (391)
Q Consensus 275 ptKVDRSaAY~AR~iAKniVaaGlA~~c~vQlsYAIGv~~Pvsi~V~tfgT-~~~~-~~~i~~~v~~~F 341 (391)
.+.|-|.--+++-.|++.+..+|+..- ...|+|+. ||+. -.++ -+.|.+++++.|
T Consensus 72 ~~~~~~am~~L~~~V~~~l~~~Gv~av----------~~~P~s~~--~~~gr~~~~~l~~i~~~l~~gf 128 (252)
T COG1608 72 FSLTHLAMLELNSIVVDALLDAGVRAV----------SVVPISFS--TFNGRILYTYLEAIKDALEKGF 128 (252)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccc----------cccCccee--ecCCceeechHHHHHHHHHcCC
Confidence 355666666777788888888876421 13677776 4432 2244 556666766554
No 42
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=20.49 E-value=1.2e+02 Score=32.29 Aligned_cols=54 Identities=26% Similarity=0.325 Sum_probs=37.3
Q ss_pred EEEEeecCCCcCCHHHHHHHHHHhCCCC-----------------hHHHHHHhcccccccccccc---ccccccC
Q 045474 317 SVFVDTYGTGKISDKDILALIKENFDFR-----------------PGMIAINLDLKRGGNFRYQK---TAACGHF 371 (391)
Q Consensus 317 si~V~tfgT~~~~~~~i~~~v~~~Fdl~-----------------p~~Ii~~L~L~~P~~~iY~~---ta~yGHF 371 (391)
-|.|||-|-+..+...+.++ ++.|+.+ -..|++.|.+-...++|+-| |.+||||
T Consensus 284 ~ILVDTaGrs~~D~~~i~el-~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~~I~TKlDET~s~G~~ 357 (407)
T COG1419 284 VILVDTAGRSQYDKEKIEEL-KELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDGLIFTKLDETTSLGNL 357 (407)
T ss_pred EEEEeCCCCCccCHHHHHHH-HHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcceeEEEcccccCchhHH
Confidence 37899999988888777665 4555555 35677777777766666654 4556654
No 43
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=20.27 E-value=1.1e+02 Score=23.09 Aligned_cols=24 Identities=17% Similarity=0.325 Sum_probs=20.1
Q ss_pred HHHHHHHHHHhCCCChHHHHHHhc
Q 045474 330 DKDILALIKENFDFRPGMIAINLD 353 (391)
Q Consensus 330 ~~~i~~~v~~~Fdl~p~~Ii~~L~ 353 (391)
-++|.+.|.+.|+++|..|...=.
T Consensus 2 ~~~I~~~Va~~~~i~~~~i~s~~R 25 (60)
T smart00760 2 IEEIIEAVAEYFGVKPEDLKSKSR 25 (60)
T ss_pred HHHHHHHHHHHhCCCHHHHhcCCC
Confidence 478999999999999999865433
No 44
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=20.24 E-value=1.9e+02 Score=22.75 Aligned_cols=26 Identities=19% Similarity=0.346 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHcCCCCcccCCceeeEEEEEec
Q 045474 146 TKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRN 178 (391)
Q Consensus 146 h~L~~~l~~~Rk~g~~~~l~pD~KtQVtv~Y~~ 178 (391)
.+|++.|.++|++|.++ .+|++.|+.
T Consensus 15 ~~l~~~lr~~RR~g~i~-------~~vsi~~~~ 40 (63)
T PF04566_consen 15 EELVKTLRNLRRSGKIS-------KEVSIVYDI 40 (63)
T ss_dssp HHHHHHHHHHHHTTSS--------TTSEEEEET
T ss_pred HHHHHHHHHHhhccCCc-------ceeEEEEec
Confidence 46889999999999776 257887754
No 45
>COG4081 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.01 E-value=62 Score=29.78 Aligned_cols=23 Identities=22% Similarity=0.351 Sum_probs=20.5
Q ss_pred EecCCCCCCCCchHHHHHHHHHH
Q 045474 129 YATDETPELMPLTLVLATKLGAR 151 (391)
Q Consensus 129 YA~~ET~~~MPl~i~lAh~L~~~ 151 (391)
.-|-|.|-..|+.|+++|||-++
T Consensus 9 lGCPeiP~qissaiYls~klkkk 31 (148)
T COG4081 9 LGCPEIPPQISSAIYLSHKLKKK 31 (148)
T ss_pred ecCCCCCccchHHHHHHHHhhcc
Confidence 45999999999999999999765
Done!