RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781102|ref|YP_003065515.1|
UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase
[Candidatus Liberibacter asiaticus str. psy62]
(497 letters)
>gnl|CDD|178894 PRK00139, murE,
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate ligase; Provisional.
Length = 460
Score = 498 bits (1286), Expect = e-141
Identities = 196/504 (38%), Positives = 267/504 (52%), Gaps = 59/504 (11%)
Query: 1 MKLQDLIYKDFPELINQLSIFPMQWRERKINEVSSDSRHIQAGWIFVAIVGNKEDGHLFI 60
MKL+DL+ +I ++ DSR ++ G +FVA+ G+K DG FI
Sbjct: 4 MKLRDLL------------------APVEITGLTYDSRKVKPGDLFVALPGHKVDGRDFI 45
Query: 61 PQAIAQGAEAIVVSSAYSLQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHPEN---I 117
QAIA GA A+V + P+++V + RK L+L A+ YG HP + +
Sbjct: 46 AQAIANGAAAVVAEADGEAGT-------GVPVIIVPDLRKALALLAAAFYG-HPSDKLKL 97
Query: 118 LAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNR----LTTPSPIYLAKA 173
+ VTGT+GK++ A + QI + G + IG T+ + LTTP + L +
Sbjct: 98 IGVTGTNGKTTTAYLLAQILRLLGEKTALIG---TLGNGIGGELIPSGLTTPDALDLQRL 154
Query: 174 LSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRL 233
L+ L GVT+ ++E SSH LDQ R+DG+K FTNL RDH+DYH T + Y AK RL
Sbjct: 155 LAELVDAGVTYAAMEVSSHALDQGRVDGLKFDVAVFTNLSRDHLDYHGTMEDYLAAKARL 214
Query: 234 FEELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTI 293
F EL A+I ADD + ++ A +V G + V + Q T+
Sbjct: 215 FSELGLA---AVINADDEVGRRLL-----ALPDAYAVSMAGADLRATDVEYTDSGQTFTL 266
Query: 294 SVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNS 353
+ PL G F V N L A +A+G+ L L KL VPGR E V
Sbjct: 267 -----VTEVESPLIGRFNVSNLLAALAALLALGVPLEDALAALAKLQGVPGRMERVDAGQ 321
Query: 354 RGGRIYVDYAHTSNSLEMILKNIRTITSGRIIVVFGCGGDRDQGKRPIMGKIALDLADIA 413
G + VDYAHT ++LE +L+ +R GR+I VFGCGGDRD+GKRP+MG IA LAD+
Sbjct: 322 -GPLVIVDYAHTPDALEKVLEALRPHAKGRLICVFGCGGDRDKGKRPLMGAIAERLADVV 380
Query: 414 IVTDDNPRSEDPEKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLVVAGKGHETVH 473
IVT DNPRSEDP I A+I+ GI IE +R EAIR AI DV+++AGKGHE
Sbjct: 381 IVTSDNPRSEDPAAIIADILAGIYDVIE--DRAEAIRYAIAQAKPGDVVLIAGKGHEDYQ 438
Query: 474 IVTNGEKKMSV---DCDIIREILG 494
I+ G K + D ++ RE L
Sbjct: 439 II-GGVK---IPFDDREVAREALA 458
>gnl|CDD|183385 PRK11929, PRK11929, putative bifunctional
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate
ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-
alanine ligase; Provisional.
Length = 958
Score = 387 bits (995), Expect = e-108
Identities = 183/476 (38%), Positives = 256/476 (53%), Gaps = 24/476 (5%)
Query: 23 MQWRERKINEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDF 82
++ ++ DSR +Q G +FVA G DG FI QA+A+GA A++V + Q
Sbjct: 22 LRGCVAATADLRLDSREVQPGDLFVACRGAASDGRAFIDQALARGAAAVLVEAEGEDQVA 81
Query: 83 SATIRSNTPILVVDNTRKFLSLFASRLYGKHPE--NILAVTGTSGKSSVASFVQQICQRS 140
+A +L V + RK L A+R YG+ E +++AVTGT+GK+S A + Q+ R
Sbjct: 82 AADAL----VLPVADLRKALGELAARWYGRPSEQLSLVAVTGTNGKTSCAQLLAQLLTRL 137
Query: 141 GLSSFQIGPTST-ISSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRL 199
G IG + LTTP I L + L+ + + G V++EASSHGL+Q RL
Sbjct: 138 GKPCGSIGTLGARLDGRLIPGSLTTPDAIILHRILARMRAAGADAVAMEASSHGLEQGRL 197
Query: 200 DGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKR 259
DG+++ FTNL RDH+DYH T Q Y AK LF +L P A+I ADD + R
Sbjct: 198 DGLRIAVAGFTNLTRDHLDYHGTMQDYEEAKAALFSKL-PGLGAAVINADDPAAA----R 252
Query: 260 AHNAGCRVLSVGYQ----GKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNA 315
A R L VGY G + + + A + Q T++ + + L G F V N
Sbjct: 253 LLAALPRGLKVGYSPQNAGADVQARDLRATAHGQVFTLATPDGSYQLVTRLLGRFNVSNL 312
Query: 316 LVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVG--TNSRGGRIYVDYAHTSNSLEMIL 373
L+ A +G+ A + L + VPGR E VG ++G + VDYAHT ++L L
Sbjct: 313 LLVAAALKKLGLPLAQIARALAAVSPVPGRMERVGPTAGAQGPLVVVDYAHTPDALAKAL 372
Query: 374 KNIRTIT---SGRIIVVFGCGGDRDQGKRPIMGKIALDLADIAIVTDDNPRSEDPEKIRA 430
+R + +GR++ VFGCGGDRD+GKRP MG+IA +LAD +VT DNPRSE PE I
Sbjct: 373 TALRPVAQARNGRLVCVFGCGGDRDKGKRPEMGRIAAELADRVVVTSDNPRSEAPEAIID 432
Query: 431 EIIHGIPG---FIEKGNRIEAIRTAIEMLNKQDVLVVAGKGHETVHIVTNGEKKMS 483
+I+ GIP +R EAIR AI M DV+++AGKGHET + +
Sbjct: 433 QILAGIPAGARVFVISDRAEAIRQAIWMAAPGDVILIAGKGHETYQEIGGRKLFFD 488
Score = 107 bits (270), Expect = 6e-24
Identities = 91/373 (24%), Positives = 154/373 (41%), Gaps = 37/373 (9%)
Query: 28 RKINEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIR 87
VS+DSR + G +FVA+ G DGH ++PQA A GA A VV + D
Sbjct: 524 PHAGAVSTDSRSVGRGELFVALRGENFDGHDYLPQAFAAGACAAVVERQVADVDL----- 578
Query: 88 SNTPILVVDNTRKFLSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQI 147
P +VVD+TR L A+ + ++A+TG++GK++ + I L+++Q
Sbjct: 579 ---PQIVVDDTRAALGRLATAWRARFSLPVVAITGSNGKTTTKEMIAAI-----LAAWQG 630
Query: 148 GPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSV-EASSHGLDQ-HRLDGI-KL 204
+ +N + P L+ L + +V E + + L I
Sbjct: 631 EDRVLATEGNFNNEIGVP--------LTLLRLRAQHRAAVFELGMNHPGEIAYLAAIAAP 682
Query: 205 IAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAG 264
TN R+H ++ + +A AK + LP++ A++ DD Y+ K A
Sbjct: 683 TVALVTNAQREHQEFMHSVEAVARAKGEIIAA-LPEDGVAVVNGDDPYTAIWAKLA--GA 739
Query: 265 CRVLSVGYQ-GKFIHLKKVCAIHNKQQVT-----ISVEGKDFDFLFPLPGEFQVYNALVA 318
RVL G Q G ++ +K+ + + + + PL GE + NAL A
Sbjct: 740 RRVLRFGLQPGADVYAEKIAKDISVGEAGGTRCQVVTPAGSAEVYLPLIGEHNLRNALAA 799
Query: 319 AGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSNSLEM--ILKNI 376
+A G + LE+ V GR + + G +D + +N M + +
Sbjct: 800 IACALAAGASLKQIRAGLERFQPVAGRMQRRRLS--CGTRIIDDTYNANPDSMRAAIDVL 857
Query: 377 RTITSGRIIVVFG 389
+ +G +V G
Sbjct: 858 AELPNGPRALVLG 870
>gnl|CDD|162196 TIGR01085, murE, UDP-N-acetylmuramyl-tripeptide synthetase. A
close homolog, scoring just below the trusted cutoff, is
found (with introns) in Arabidopsis thaliana. Its role
is unknown.
Length = 464
Score = 382 bits (984), Expect = e-107
Identities = 175/459 (38%), Positives = 238/459 (51%), Gaps = 23/459 (5%)
Query: 33 VSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIRSNTPI 92
++ DSR ++ G +FVAI G DGH FI AIA GA A+VV + P+
Sbjct: 7 LTLDSREVKPGDLFVAIKGTHVDGHDFIHDAIANGAVAVVVERDVDFY------VAPVPV 60
Query: 93 LVVDNTRKFLSLFASRLYG--KHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPT 150
++V + R LS A+ YG ++ VTGT+GK++ S + Q+ + G + IG
Sbjct: 61 IIVPDLRHALSSLAAAFYGHPSKKLKVIGVTGTNGKTTTTSLIAQLLRLLGKKTGLIGTI 120
Query: 151 STI----SSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIA 206
LTTP + L L+ + G + +E SSH L Q R+ G++ A
Sbjct: 121 GYRLGGNDLIKNPAALTTPEALTLQSTLAEMVEAGAQYAVMEVSSHALAQGRVRGVRFDA 180
Query: 207 GSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCR 266
FTNL RDH+D+H T + YF AK LF EL K A+I DD Y + +KR
Sbjct: 181 AVFTNLSRDHLDFHGTMENYFAAKASLFTELGLK-RFAVINLDDEYGAQFVKRLPKD-IT 238
Query: 267 VLSVGYQG----KFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVA-AGL 321
V ++ + I + QQ T + PL G F VYN L A A L
Sbjct: 239 VSAITQPADGRAQDIKITDSGYSFEGQQFTFETPAGEGHLHTPLIGRFNVYNLLAALATL 298
Query: 322 CIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTITS 381
GID ++ LEK VPGR E V + + VDYAHT ++LE L+ +R
Sbjct: 299 LHLGGIDLEDIVAALEKFRGVPGRMELV-DGGQKFLVIVDYAHTPDALEKALRTLRKHKD 357
Query: 382 GRIIVVFGCGGDRDQGKRPIMGKIALDLADIAIVTDDNPRSEDPEKIRAEIIHGIP---G 438
GR+IVVFGCGGDRD+GKRP+MG IA LAD+ I+T DNPR EDPE+I A+I+ GI
Sbjct: 358 GRLIVVFGCGGDRDRGKRPLMGAIAEQLADLVILTSDNPRGEDPEQIIADILAGISEKEK 417
Query: 439 FIEKGNRIEAIRTAIEMLNKQDVLVVAGKGHETVHIVTN 477
+ +R +AIR AI DV+++AGKGHE I+
Sbjct: 418 VVIIADRRQAIRYAISNAKAGDVVLIAGKGHEDYQIIGG 456
>gnl|CDD|184459 PRK14022, PRK14022,
UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase;
Provisional.
Length = 481
Score = 238 bits (608), Expect = 3e-63
Identities = 137/499 (27%), Positives = 229/499 (45%), Gaps = 57/499 (11%)
Query: 2 KLQDLIYKD--FPELINQLSIFPMQWRERKINEVSSDSRHIQAGWIFVAIVGNKEDGHLF 59
L D++ KD F E+I+Q + + +++S DSR G +F A + H F
Sbjct: 5 TLLDILKKDHNFREIIDQDHYH-YNYSGVQFDDISYDSRTADEGTLFFAKGAYFK--HKF 61
Query: 60 IPQAIAQGAEAIVVSSAYSLQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHPEN--- 116
+ AI QG + V Y + P ++V + +K +SL A Y +P++
Sbjct: 62 LQNAITQGLKLYVSEKDYEV---------GIPQVIVPDIKKAMSLIAMEFYD-NPQHKLK 111
Query: 117 ILAVTGTSGKSSVASFVQQICQR-------SGLSSFQIGPTSTISSFAQDNRLTTPSPIY 169
+LA TGT GK++ A F I ++ S +++ G T S+ LTTP +
Sbjct: 112 LLAFTGTKGKTTAAYFAYHILKQLHKPAMLSTMNTTLDGETFFKSA------LTTPESLD 165
Query: 170 LAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDY--HQTQQAYF 227
L K ++ G+TH+ +E SS R+ G+ G F N+ DHI H T + YF
Sbjct: 166 LFKMMAEAVDNGMTHLIMEVSSQAYLVGRVYGLTFDVGVFLNITPDHIGPIEHPTFEDYF 225
Query: 228 NAKMRLFEELLPKESPAIIYAD-DAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCA-I 285
K RL L+ ++ +D D +S+ + V Q + I
Sbjct: 226 YHK-RL---LMENSKAVVVNSDMDHFSELLE-----------QVTPQEHDFYGIDSENQI 270
Query: 286 HNKQQVTISVEGKDF-DFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPG 344
+ GK + L G+F NA+ A C+ +G + + + + VPG
Sbjct: 271 MASNAFSFEATGKLAGTYDIQLIGKFNQENAMAAGLACLRLGASLEDIQKGIAQ-TPVPG 329
Query: 345 RFEFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTITSGRIIVVFGCGGDRDQGKRPIMGK 404
R E V T S G ++++DYAH +SL ++ + G++I++ G G++ + +RP G+
Sbjct: 330 RME-VLTQSNGAKVFIDYAHNGDSLNKLIDVVEEHQKGKLILLLGAAGNKGESRRPDFGR 388
Query: 405 IALDLADIA-IVTDDNPRSEDPEKIRAEIIHGIPGFIEK-GNRIEAIRTAIEMLN-KQDV 461
+A + I+T D+P +EDP+ I EI I +E +R EAI+ A+ + D
Sbjct: 389 VANRHPYLQVILTADDPNNEDPKMITQEIASHITHPVEIIDDRAEAIKHAMSITEGPGDA 448
Query: 462 LVVAGKGHETVHIVTNGEK 480
+++AGKG + IV G +
Sbjct: 449 VIIAGKGADAYQIV-PGHR 466
>gnl|CDD|149357 pfam08245, Mur_ligase_M, Mur ligase middle domain.
Length = 188
Score = 143 bits (362), Expect = 1e-34
Identities = 62/206 (30%), Positives = 97/206 (47%), Gaps = 21/206 (10%)
Query: 120 VTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSYLSS 179
+TGT+GK++ + + +G G T + I L L+ +
Sbjct: 1 ITGTNGKTTTTELIAALLSAAGGVVGTGG--------------NTNNAIGLPLLLALMER 46
Query: 180 QGVTHVSVEASSHGLDQHRLDGI-KLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELL 238
+G + +E SS GL + RL+G+ K TN+ DH+DYH T + Y AK +F E L
Sbjct: 47 KGADYAVLELSSFGLGEGRLEGLAKPDIAVITNISPDHLDYHGTMENYAAAKAEIF-EGL 105
Query: 239 PKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQ--VTISVE 296
P++ A+I ADD E+ KR NAG +V++ G + + + ++ V +V
Sbjct: 106 PEDGIAVINADD---PELAKRLKNAGAKVITFGLENEADDRAANIYVSSEGGKIVLFTVP 162
Query: 297 GKDFDFLFPLPGEFQVYNALVAAGLC 322
G + + PLPG VYNAL A
Sbjct: 163 GGELEISLPLPGRHNVYNALAALAAA 188
>gnl|CDD|162224 TIGR01143, murF,
UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine
ligase. This family consists of the strictly bacterial
MurF gene of peptidoglycan biosynthesis. This enzyme is
almost always
UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a
few species, MurE adds lysine rather than
diaminopimelate. This enzyme acts on the product from
MurE activity, and so is also subfamily rather than
equivalog. Staphylococcus aureus is an example of
species in this MurF protein would differ.
Length = 417
Score = 124 bits (313), Expect = 5e-29
Identities = 98/359 (27%), Positives = 156/359 (43%), Gaps = 34/359 (9%)
Query: 36 DSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIRSNTPILVV 95
DSR I+ G +F+A+ G + DGH F+ QA+A GA A++V D P ++V
Sbjct: 2 DSRAIKPGDLFIALKGERFDGHDFVEQALAAGAVAVLVDREV-GPDNGL------PQILV 54
Query: 96 DNTRKFLSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISS 155
D+T + L AS K ++ +TG+SGK++ + I +T +
Sbjct: 55 DDTLEALQALASAKRAKFSGKVIGITGSSGKTTTKEMLAAILSHKY------KVFATPGN 108
Query: 156 FAQDNRLTTPSPIYLAKALSYLSSQGVTHVSV-E--ASSHGLDQHRLDGIKLIAGSFTNL 212
F +N + P L+ L + G +V E AS G + + K TN+
Sbjct: 109 F--NNEIGLP--------LTLLRAPGDHDYAVLEMGASHPGEIAYLAEIAKPDIAVITNI 158
Query: 213 GRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGY 272
G H++ + + AK + + L + A+I ADD + KR N +LS G+
Sbjct: 159 GPAHLEGFGSLEGIAEAKGEILQG-LKENGIAVINADDPAFAKFAKRLPN--KAILSFGF 215
Query: 273 QGKFIHLKKVC-AIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSAL 331
+G + + T+ G +F+ PL G V NAL AA L + +GI
Sbjct: 216 EGGDFSAADISYSALGSTGFTLVAPGGEFEVSLPLLGRHNVMNALAAAALALELGIPLEE 275
Query: 332 VLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSNSLEMI-LKNIRTITSGRIIVVFG 389
+ E L +L +V GRFE N G +D + +N M + G+ I+V G
Sbjct: 276 IAEGLAELKLVKGRFEIQTKN---GLTLIDDTYNANPDSMRAALDALARFPGKKILVLG 331
>gnl|CDD|162197 TIGR01087, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase.
Length = 433
Score = 107 bits (269), Expect = 7e-24
Identities = 56/245 (22%), Positives = 101/245 (41%), Gaps = 35/245 (14%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSY 176
++A+TGT+GK++ S + + + +GL +F G + TP AL
Sbjct: 104 VVAITGTNGKTTTTSLLYHLLKAAGLKAFLGG------------NIGTP-------ALEV 144
Query: 177 LSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEE 236
L +G +E SS L + ++ N+ DH+D+H + + Y AK+++F
Sbjct: 145 LDQEGAELYVLELSSFQL--ETTESLRPEIALILNISEDHLDWHGSFEDYVAAKLKIFA- 201
Query: 237 LLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVE 296
+ A++ ADD + A + +V+ + + +C I +
Sbjct: 202 RQTEGDVAVLNADD---PRFARLAQKSKAQVIWFSVEK--DAERGLC-IRDGGLYL---- 251
Query: 297 GKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGG 356
K D L G N L A L ++G++ +LE L +P R E+VG G
Sbjct: 252 -KPNDLEGSLLGLHNAENILAAIALAKSLGLNLEAILEALRSFKGLPHRLEYVGQK--NG 308
Query: 357 RIYVD 361
+ +
Sbjct: 309 VHFYN 313
>gnl|CDD|162195 TIGR01082, murC, UDP-N-acetylmuramate--alanine ligase.
UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-
diaminopimelate ligase (murein tripeptide ligase) is
described by TIGR01081.
Length = 448
Score = 85.8 bits (213), Expect = 2e-17
Identities = 83/343 (24%), Positives = 138/343 (40%), Gaps = 52/343 (15%)
Query: 59 FIPQAIAQ--GAEAIVVSSAY--SLQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHP 114
+I + A+ +VVS+A + P++ R + A + +H
Sbjct: 48 YIGHSAENLDDADVVVVSAAIKDDNPEIVEAKERGIPVI----RRA--EMLAELMRFRHS 101
Query: 115 ENILAVTGTSGKSSVASFVQQICQRSGLS-SFQIGPTSTISSFAQDNRLTTPSPIYLAKA 173
+AV GT GK++ + + I + +GL + +G + + RL + +A+A
Sbjct: 102 ---IAVAGTHGKTTTTAMIAVILKEAGLDPTVVVG--GLVKEAGTNARLGS-GEYLVAEA 155
Query: 174 ----LSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNA 229
S+L Q +V++ TN+ DH+D + + A
Sbjct: 156 DESDASFLHLQ--PNVAI---------------------VTNIEPDHLDTYGSSFERLKA 192
Query: 230 KMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQ 289
F LP A+I ADD +E++ +A +V++ G G+ + +
Sbjct: 193 AFEKFIHNLPFYGLAVICADDPVLRELVPKATE---QVITYGGSGEDADYRAENIQQSGA 249
Query: 290 QVTISVEGKD---FDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRF 346
+ SV GK +F LPG V NAL A + + +GID +L L V RF
Sbjct: 250 EGKFSVRGKGKLYLEFTLNLPGRHNVLNALAAIAVALELGIDFEAILRALANFQGVKRRF 309
Query: 347 EFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTI-TSGRIIVVF 388
E +G G + DYAH ++ LK R RI+VVF
Sbjct: 310 EILGEF-GGVLLIDDYAHHPTEIKATLKAARQGYPDKRIVVVF 351
>gnl|CDD|179018 PRK00421, murC, UDP-N-acetylmuramate--L-alanine ligase;
Provisional.
Length = 461
Score = 75.9 bits (188), Expect = 2e-14
Identities = 71/287 (24%), Positives = 107/287 (37%), Gaps = 52/287 (18%)
Query: 210 TNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLS 269
TN+ DH+DY+ + +A + F LP + DD +E++ R V++
Sbjct: 181 TNIDADHLDYYGDFEDLKDA-FQEFAHNLPFYGALVACGDDPELRELLPRV---SRPVIT 236
Query: 270 VGYQGK-FIHLKKVCAIHNKQQVTISVEGKDF-DFLFPLPGEFQVYNALVAAGLCIAIGI 327
G+ + + + G+ DF PLPG V NAL A + + +GI
Sbjct: 237 YGFSEDADFRAENIRQDGGGTHFDVLRRGEVLGDFTLPLPGRHNVLNALAAIAVALELGI 296
Query: 328 DSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYV-DYAH--TSNSLEMI--LKNIRTIT-S 381
D + E L V RFE G GG + + DYAH T E+ LK R
Sbjct: 297 DDEAIREALATFKGVKRRFEEKGEV--GGVVLIDDYAHHPT----EIKATLKAARQGYPD 350
Query: 382 GRIIVVFGCGGDRDQ--------------GKRPIMGKIALDLADIAIVTDDNPRSEDP-- 425
RI+ VF Q + AL AD I+ D E+P
Sbjct: 351 KRIVAVF-------QPHRYSRTRDLLDEFAE-------ALSDADEVILLDIYAAGEEPIG 396
Query: 426 ----EKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLVVAGKG 468
E + +I G I + + E+L D+++ G G
Sbjct: 397 GVDSEDLARKIKRGHRDPIFVPDLEDLAELLAEVLKPGDLVLTMGAG 443
>gnl|CDD|162681 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin
synthesis is analogous to polyhydroxyalkanoic acid (PHA)
biosynthesis, except that PHA polymers lack nitrogen and
may be made under nitrogen-limiting conditions.
Length = 864
Score = 75.2 bits (185), Expect = 3e-14
Identities = 89/402 (22%), Positives = 146/402 (36%), Gaps = 66/402 (16%)
Query: 104 LFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLT 163
LF + G+ P I++VTGT+GK++ V I +++G +G T+T + +
Sbjct: 470 LFPAEDDGRIP--IVSVTGTNGKTTTTRLVAHILKQTG---KVVGMTTTDGVYIGKYLVE 524
Query: 164 TPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHI---DYH 220
A A L V +E + G+ + L + G TN+ DH+ D +
Sbjct: 525 KGDNTGPASARRILMDPTVDAAVLETARGGILREGLAFDRCDVGVVTNIAGDHLGIGDIN 584
Query: 221 QTQQ-----------------AYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNA 263
+ A NA + + K I Y + +
Sbjct: 585 TIEDLADVKRVVVEVVLPDGYAVLNADDPMVAAMAEKCKGKIAYFSMDPNNPTVAAHIAD 644
Query: 264 GCRVLSV--GY----QGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALV 317
G R + GY +G AI + +++ G+ FQ+ NAL
Sbjct: 645 GGRAVYYENGYIVIARGGDEV-----AIARIAAIPLTMGGR---------VAFQIENALA 690
Query: 318 AAGLCIAIGIDSALVLEHLEKLHV----VPGRFEFVGTNSRGGRIYVDYAHTSNSLEMIL 373
A A+G+ L+ + PGRF N G + VDY H ++E +
Sbjct: 691 AVAAAWALGVPIELIRAGIRTFDADAAQAPGRFNLF--NLGGAHVLVDYGHNPAAIEAVG 748
Query: 374 KNIRTITSGRIIVVFGCGGDRDQGKRPIMGKIALDLAD-IAIVTDDNPRSEDPEKIRAEI 432
IR + R I V G GDR G++ D I + DD+ R + A +
Sbjct: 749 AAIRNWPARRRIGVIGGPGDRRDEDLVEQGELLGGAFDQIILKEDDDVRGRPRGEAAALL 808
Query: 433 IHGIPGFIEKGNR----------IEAIRTAIEMLNKQDVLVV 464
G + + R EAI A++ L D++V+
Sbjct: 809 RQG----LRQSARKAAIEDILDETEAIAAALDDLRAGDLVVI 846
>gnl|CDD|182718 PRK10773, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine
ligase; Reviewed.
Length = 453
Score = 74.7 bits (184), Expect = 5e-14
Identities = 35/100 (35%), Positives = 56/100 (56%), Gaps = 9/100 (9%)
Query: 30 INEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIRSN 89
I+ V++D+R + G +FVA+ G + D H F A A GA A++VS + +
Sbjct: 24 IDAVTTDTRKVTPGCLFVALKGERFDAHDFADDAKAAGAGALLVSRPLDI---------D 74
Query: 90 TPILVVDNTRKFLSLFASRLYGKHPENILAVTGTSGKSSV 129
P LVV +TR A+ + + P ++A+TG+SGK+SV
Sbjct: 75 LPQLVVKDTRLAFGQLAAWVRQQVPARVVALTGSSGKTSV 114
Score = 44.3 bits (105), Expect = 7e-05
Identities = 20/47 (42%), Positives = 24/47 (51%)
Query: 299 DFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGR 345
D L PLPG + NAL AA L +++G V L L VPGR
Sbjct: 271 SVDVLLPLPGRHNIANALAAAALAMSVGATLDAVKAGLANLKAVPGR 317
>gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional
UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine
ligase/alanine racemase; Provisional.
Length = 822
Score = 70.0 bits (172), Expect = 1e-12
Identities = 75/339 (22%), Positives = 129/339 (38%), Gaps = 60/339 (17%)
Query: 30 INEVSSDSRHIQ--AGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIR 87
I+++ +DSR + +F A+ G + DGH +I + +G VVS
Sbjct: 24 IDQILTDSRSLSFPENTLFFALKGERNDGHRYIQELYEKGVRNFVVSEEKH----PEESY 79
Query: 88 SNTPILVVDNTRKFLSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQI 147
+ L V + K L A+ + ++ +TG++GK+ V ++ Q+ LS
Sbjct: 80 PDANFLKVKDPLKALQELAAYHRSQFDIPVIGITGSNGKTIVKEWLYQL-----LS---- 130
Query: 148 GPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSV------------EAS-SHGL 194
+ SP SY S GV +SV EA S
Sbjct: 131 -----------PDYNIVRSP------RSYNSQIGVP-LSVWQLNEEHELGIFEAGISQPG 172
Query: 195 DQHRL-DGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADD--A 251
+ L IK G TN+G H + ++ + K++LF K+ IIY D
Sbjct: 173 EMEALQKIIKPTIGILTNIGGAHQENFRSIKQKIMEKLKLF-----KDCDVIIYNGDNEL 227
Query: 252 YSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQ-QVTISVEGKDFDFLFPLP--G 308
S + N +++S + L + + K+ IS K DF F +P
Sbjct: 228 ISSCI--TKSNLTLKLISWSRKDPEAPL-YIPFVEKKEDHTVISYTYKGEDFHFEIPFID 284
Query: 309 EFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFE 347
+ + N + + + +G + + E + +L V R E
Sbjct: 285 DASIENLIHCIAVLLYLGYSADQIQERMARLEPVAMRLE 323
>gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 460
Score = 69.5 bits (171), Expect = 2e-12
Identities = 63/251 (25%), Positives = 97/251 (38%), Gaps = 36/251 (14%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSY 176
+A+TGT+GKS+ + + I + +G Q+G + T L
Sbjct: 116 FIAITGTNGKSTTTALIAHILREAGRDV-QMG-----------GNIGTA-----VLTLEP 158
Query: 177 LSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEE 236
+ V +V +E SS+ +D + G NL DH+D H T + Y AK RLF
Sbjct: 159 PPAGRV-YV-LELSSYQID--LAPSLDPDVGVLLNLTPDHLDRHGTMEGYAAAKERLFAG 214
Query: 237 LLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVE 296
P A+I DDAY + + R AG RV+ + ++ +
Sbjct: 215 QGP--DTAVIGVDDAYCRAIADRLEAAGRRVVRISAGKPL-----ADGVYADGGKLVDAR 267
Query: 297 GKDFDFLFP------LPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVG 350
G + LPG NA A A+G+ + L + R E VG
Sbjct: 268 GGRQVEIADLRGIPSLPGAHNAQNAAAAYAAARALGLSPEEIAAGLASFPGLAHRMEQVG 327
Query: 351 TNSRGGRIYVD 361
RGG ++V+
Sbjct: 328 R--RGGVLFVN 336
>gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 450
Score = 68.8 bits (169), Expect = 3e-12
Identities = 72/307 (23%), Positives = 122/307 (39%), Gaps = 60/307 (19%)
Query: 59 FIPQAIAQGAEAIVVSSAYSLQDFSATIRSNTPILVVDNTRKFLSL----FASRLYGKHP 114
P+ +G + +VVS L +P +V + + + A R
Sbjct: 60 EYPEEFLEGVDLVVVSPGVPLD---------SPPVVQAHKKGIEVIGEVELAYRF---SK 107
Query: 115 ENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKAL 174
I+A+TGT+GK++ + + +I + +G + G N I
Sbjct: 108 APIVAITGTNGKTTTTTLLGEIFKNAGRKTLVAG-----------N-------IGYPLID 149
Query: 175 SYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLF 234
+ + E SS L+ + K G N+ DH+D H+T + Y AK R+F
Sbjct: 150 AVEEYGEDDIIVAEVSSFQLET--IKEFKPKVGCILNITPDHLDRHKTMENYIKAKARIF 207
Query: 235 EELLPKESPAIIYADDAYSKEVMKRAHNAGCRVL-----SVGYQGKFIHLKKVCAIHNKQ 289
E P + ++ DD ++ + K+A RV+ S+ +G F+
Sbjct: 208 ENQRPSDY-TVLNYDDPRTRSLAKKAK---ARVIFFSRKSLLEEGVFV---------KNG 254
Query: 290 QVTISVEGK-----DFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPG 344
++ IS+ GK D D +F +PGE + NAL A +GI ++ L+ V
Sbjct: 255 KIVISLGGKEEEVIDIDEIF-IPGEHNLENALAATAAAYLLGISPDVIANTLKTFKGVEH 313
Query: 345 RFEFVGT 351
R EFV
Sbjct: 314 RIEFVAE 320
>gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 480
Score = 67.8 bits (166), Expect = 6e-12
Identities = 64/276 (23%), Positives = 103/276 (37%), Gaps = 58/276 (21%)
Query: 106 ASRLYGK-HPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTT 164
A RL P LAVTGT+GK++ + + + +GL + +G T
Sbjct: 112 AWRLRDPDRPAPWLAVTGTNGKTTTVQMLASMLRAAGLRAAAVGNIGT------------ 159
Query: 165 PSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQ 224
P+ A +G ++VE SS L H + + + NL DH+D+H + +
Sbjct: 160 --PVLDA----VRDPEGYDVLAVELSSFQL--HWSPSVSPHSAAVLNLAPDHLDWHGSME 211
Query: 225 AYFNAKMRLFEELLPKESPAIIY-ADDAYSKEVMKRAHNA-GCRVLSVGYQGKFIHLKKV 282
AY AK R++E + A +Y D ++++++ A G R +
Sbjct: 212 AYAAAKARIYE----GTTVACVYNVADPATEDLVEEADVVEGARAIGFTL---------- 257
Query: 283 CAIHNKQQVTISVEGKDFDFLF-----------------PLPGEFQVYNALVAAGLCIAI 325
Q+ + V+G D F + NAL AA L +
Sbjct: 258 -GTPGPSQLGV-VDGILVDRAFVEDRQTSALELATLEDLRPAAPHNIANALAAAALARSF 315
Query: 326 GIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVD 361
G+ A V + L R E V G +VD
Sbjct: 316 GVPPAAVRDGLRAFRPDAHRIEHVAD--ADGVTWVD 349
>gnl|CDD|179428 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 447
Score = 67.6 bits (166), Expect = 6e-12
Identities = 59/251 (23%), Positives = 101/251 (40%), Gaps = 41/251 (16%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTST-ISSFAQDNRLTTPSPIYLAKALS 175
I+ +TG++GK++ + + ++ + G + G S AQ A A
Sbjct: 110 IIGITGSNGKTTTTTLIGEMLKAGGQHALLAGNIGYPASEVAQK-----------ATADD 158
Query: 176 YLSSQGVTHVSVEASSH---GLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMR 232
L V E SS G++ R I +I TN+ H+DYH T + Y AK
Sbjct: 159 TL----VM----ELSSFQLMGIETFRPH-IAVI----TNIYPAHLDYHGTFENYVAAKWN 205
Query: 233 LFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVC--AIHNKQQ 290
+ + ++ +I D +EV + A V+ K + A++ K +
Sbjct: 206 IQKNQT-EDDYLVINFDQ---EEVKELAKQTKATVVPFSTTEKVEDGAYIKDGALYFKGE 261
Query: 291 VTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVG 350
++ + D + LPG + NAL A +G+ + + E L V R ++VG
Sbjct: 262 KIMAAD----DIV--LPGSHNLENALAAIAAAKLLGVSNEAIREVLSTFSGVKHRLQYVG 315
Query: 351 TNSRGGRIYVD 361
T G + Y D
Sbjct: 316 TI-DGRKFYND 325
>gnl|CDD|162392 TIGR01499, folC, folylpolyglutamate synthase/dihydrofolate
synthase. A mutation study of the FolC gene of E. coli
suggests that both activitities belong to the same
active site. Because some examples are monofunctional
(and these cannot be separated phylogenetically), the
model is treated as subfamily, not equivalog.
Length = 397
Score = 61.1 bits (149), Expect = 5e-10
Identities = 84/403 (20%), Positives = 151/403 (37%), Gaps = 84/403 (20%)
Query: 113 HPEN---ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGP-TST-ISSF----------A 157
+P++ ++ V GT+GK S +F++ I + +G +++G TS + SF
Sbjct: 13 NPQDLYPVIHVAGTNGKGSTCAFLESILRAAG---YKVGLFTSPHLVSFNERIRINGEPI 69
Query: 158 QDNRLT-------------TPSPIY----LAKALSYLSSQGVTHVSVEASSHGLDQHRLD 200
D L + P Y A Y + V +E G RLD
Sbjct: 70 SDEELAQAFEQVRPILEKLSQQPTYFELLTLLAFLYFAQAQVDVAVLEVGLGG----RLD 125
Query: 201 G---IKLIAGSFTNLGRDHID---YHQTQQAYFNAKMRLFEELLPKESPAIIYAD---DA 251
I+ + T++G DH + + A+ K + +E +P I+ +A
Sbjct: 126 ATNVIEPLVSVITSIGLDHTEILGDTLEEIAW--EKAGIIKEGVP-----IVTGPQEPEA 178
Query: 252 YSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVEGKDF---DFLFPLPG 308
+ + K+A G + VG + +S G + L G
Sbjct: 179 LN-VLKKKAQEKGAPLFVVGRD---------FNYSETDENYLSFSGANLFLEPLALSLLG 228
Query: 309 EFQVYNALVAAGLCIAIG-----IDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYA 363
+ Q NA +A +G + + + L PGR E + I +D A
Sbjct: 229 DHQAENAALALAALEVLGKQRPKLSEEAIRKGLANTIW-PGRLEILSE--DNPNILLDGA 285
Query: 364 HTSNSLEMILKNIRTITSGR-IIVVFGCGGDRD--QGKRPIMGKIALDLADIAIVTDDNP 420
H +S E + + + +GR II++FG D+D P+ + ++ + D P
Sbjct: 286 HNPHSAEALAEWFKKRFNGRPIILLFGALADKDAAAMLAPLKPVVD---KEVFVTPFDYP 342
Query: 421 RSEDPEKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLV 463
R++D + A + G + EA+ A+ + D+LV
Sbjct: 343 RADDAADLAA--LAETFGKETVEDWREALALALNASAEDDILV 383
>gnl|CDD|179571 PRK03369, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 488
Score = 59.4 bits (144), Expect = 2e-09
Identities = 83/336 (24%), Positives = 124/336 (36%), Gaps = 61/336 (18%)
Query: 54 EDGHLFIPQAIAQGAEAIVVSSA------YSLQDFSATIRSNTPILVVDNTRKF------ 101
+D + +G + S A Y+L S R P+L
Sbjct: 42 DDDPDALRPHAERGVATVSTSDAVQQIADYALVVTSPGFRPTAPVLAAAAAAGVPIWGDV 101
Query: 102 -LS--LFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQ 158
L+ L A+ YG P L VTGT+GK++ S + + +G S G I S
Sbjct: 102 ELAWRLDAAGCYGP-PRRWLVVTGTNGKTTTTSMLHAMLIAAGRRSVLCG---NIGSPVL 157
Query: 159 DNRLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHID 218
D + LA VE SS L H ++ AG+ N+ DH+D
Sbjct: 158 D--VLDEPAELLA---------------VELSSFQL--HWAPSLRPEAGAVLNIAEDHLD 198
Query: 219 YHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRV---LSVGYQGK 275
+H T AY AK R + A++ DD+ + ++ A A RV L G+
Sbjct: 199 WHGTMAAYAAAKARALTGRV-----AVVGLDDSRAAALLDTA-PAPVRVGFRLGEPAAGE 252
Query: 276 FIHLKKVCAIHNKQQVTISVEGKDFDFL----FPLPGEFQVYNALVAAGLCIAIGIDSAL 331
+ + V + D P+PG V +AL AA L A+G+ +
Sbjct: 253 L-------GVRDGHLVDRAF-ADDLRLAPVASIPVPGPVGVLDALAAAALARAVGVPAGA 304
Query: 332 VLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSN 367
+ + L V R E V G YVD + +N
Sbjct: 305 IADALASFRVGRHRAEVVAV--ADGITYVDDSKATN 338
>gnl|CDD|179359 PRK02006, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 498
Score = 58.5 bits (142), Expect = 3e-09
Identities = 71/296 (23%), Positives = 107/296 (36%), Gaps = 84/296 (28%)
Query: 102 LSLFASRLY-----GKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSF 156
+ LFA L G P+ +LA+TGT+GK++ + +C+R+G + IS
Sbjct: 104 IELFAQALAALGASGYAPK-VLAITGTNGKTTTTALTGLLCERAGKK---VAVAGNIS-- 157
Query: 157 AQDNRLTTPSPIYLAKALSYLSSQGVTHVSV-EASS------HGLDQHRLDGIKLIAGSF 209
P L K + + + + V V E SS H L A +
Sbjct: 158 ----------PAALDKLMEAIDAGALPDVWVLELSSFQLETTHTLAPD--------AATV 199
Query: 210 TNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAH-NAGCRVL 268
N+ +DH+D+H + AY AK R+F + ++ DDA VM A +
Sbjct: 200 LNITQDHLDWHGSMAAYAAAKARIF----GPRTVRVLNRDDA---RVMAMAPPGGAADAV 252
Query: 269 SVG-----YQGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLP---------------- 307
+ G G + + + VE +D D P P
Sbjct: 253 TFGLDEPAADGDY-------GLLRDNGMAWLVEAEDRDAADPAPSRRRKKDAAPPPDIRL 305
Query: 308 ------------GEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGT 351
G NAL A L AIG+ +A +L L + P R E V T
Sbjct: 306 KRLMPADALRIRGLHNAANALAALALARAIGLPAAPLLHGLREYRGEPHRVELVAT 361
>gnl|CDD|184501 PRK14093, PRK14093,
UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
6-diaminopimelate--D-alanyl-D-alanine ligase;
Provisional.
Length = 479
Score = 56.3 bits (136), Expect = 2e-08
Identities = 31/101 (30%), Positives = 48/101 (47%), Gaps = 5/101 (4%)
Query: 28 RKINEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIR 87
R + +S DSR + G + AI G+ DGH F+ A+ GA VV +
Sbjct: 26 RDVTGISIDSRTLAPGDAYFAIKGDVHDGHAFVAAALKAGAALAVVE-----RAQRDKFA 80
Query: 88 SNTPILVVDNTRKFLSLFASRLYGKHPENILAVTGTSGKSS 128
++ P+LVVD+ L + ++AVTG+ GK+S
Sbjct: 81 ADAPLLVVDDVLAALRDLGRAARARLEAKVIAVTGSVGKTS 121
>gnl|CDD|178896 PRK00141, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 473
Score = 55.9 bits (135), Expect = 3e-08
Identities = 96/439 (21%), Positives = 158/439 (35%), Gaps = 85/439 (19%)
Query: 43 GWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYS-LQDFSATI-----RSNTPILVVD 96
G V N+ H I G I + A L FS + R ++P+LV
Sbjct: 38 GCDVVVADDNETARHKLIEVT---GVADISTAEASDQLDSFSLVVTSPGWRPDSPLLVDA 94
Query: 97 NTRKF-------LSLFASR--LYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQI 147
++ L+ + ++G+ P LAVTGT+GK++ + + + Q G ++ +
Sbjct: 95 QSQGLEVIGDVELAWRLDQAGVFGE-PRTWLAVTGTNGKTTTTAMLAAMMQEGGFAAQAV 153
Query: 148 GPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAG 207
G S A L I + A E SS L H + G
Sbjct: 154 GNIGVPVSAA----LVAQPRIDVLVA--------------ELSSFQL--HWSPTLTPDVG 193
Query: 208 SFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRV 267
NL DHID+H + + Y K ++ + A+I ADD Y ++ A +G
Sbjct: 194 VVLNLAEDHIDWHGSMRDYAADKAKVL-----RGPVAVIGADDEYVVQLTSAADLSGLIG 248
Query: 268 LSVGYQGKFIHLKKVCAIHNKQQVTI----SVEGKDFDFLFPLPGEFQVYNALVAAGLCI 323
++G + + + V +V + + P G V +AL AA +
Sbjct: 249 FTMGEPA-----AGQVGVRDGELVDNAFGQNVVLASAEGISP-AGPAGVLDALAAAAVAR 302
Query: 324 AIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSN---------SLEMI-- 372
+ G+ + L V R + V + GG ++D + +N E +
Sbjct: 303 SQGVAPEAIARALSSFEVAGHRGQVVAEH--GGVTWIDNSKATNPHAADAALAGHESVVW 360
Query: 373 -----LKN------IRTITSGRIIVVFGCGGDRDQGKRPIMGKIALDLADIAIVTDDN-- 419
LK IRT + RI G DR + I+ +A D + D+
Sbjct: 361 VAGGQLKGADIDDLIRTH-APRIKAAVVLGVDRAE----IVAALAEHAPDAPVTVTDSTD 415
Query: 420 PRSEDPEKIRAEIIHGIPG 438
P E + A + PG
Sbjct: 416 PEEAMEEAVSAAVSLAEPG 434
>gnl|CDD|167786 PRK04308, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 445
Score = 54.5 bits (131), Expect = 6e-08
Identities = 83/413 (20%), Positives = 166/413 (40%), Gaps = 66/413 (15%)
Query: 63 AIAQGAEAIVVSSAYSL-QDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHPENILAVT 121
A+ G + + +S S Q + N ++ D + L A + + + ++A+T
Sbjct: 63 ALDNGFDILALSPGISERQPDIEAFKQNGGRVLGD-----IELLA-DIVNRRGDKVIAIT 116
Query: 122 GTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQG 181
G++GK++V S V +C + GL + G T A+ R + +++
Sbjct: 117 GSNGKTTVTSLVGYLCIKCGLDTVIAGNIGTPVLEAELQREGKKADVWV----------- 165
Query: 182 VTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKE 241
+E SS L+ + ++ A + N+ DH+D + Y + K ++F +
Sbjct: 166 -----LELSSFQLEN--TESLRPTAATVLNISEDHLDRYDDLLDYAHTKAKIFR----GD 214
Query: 242 SPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIH-NKQQVTISVEGKD- 299
++ ADDA+ + MKRA G + K+ L+ ++ + +D
Sbjct: 215 GVQVLNADDAFCR-AMKRA----------GREVKWFSLEHEADFWLERETGRLKQGNEDL 263
Query: 300 FDFL-FPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRI 358
PL G N + A LC A+G+ +LEH++ +P R E +G + G +
Sbjct: 264 IATQDIPLQGLHNAANVMAAVALCEAVGLPREALLEHVKTFQGLPHRVEKIGEKN--GVV 321
Query: 359 YVDYAHTSN--SLEMILKNIRTITSGRIIVVFGCGGDRDQGKRPIMGKIALDLADIA--- 413
++D + +N + + ++ + V GG GK + LA A
Sbjct: 322 FIDDSKGTNVGATAAAIAGLQ-----NPLFVI-LGGM---GKGQDFTPLRDALAGKAKGV 372
Query: 414 -IVTDDNPRSEDPEKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLVVA 465
++ D P+ IR ++ + EA++ A D+++++
Sbjct: 373 FLIGVDAPQ------IRRDLDGCGLNLTDCATLEEAVQRAYAQAEAGDIVLLS 419
>gnl|CDD|179086 PRK00683, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 418
Score = 53.7 bits (129), Expect = 1e-07
Identities = 32/116 (27%), Positives = 49/116 (42%), Gaps = 21/116 (18%)
Query: 118 LAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSYL 177
L +TG++GK++ F++ + +R G+ +F +G PI L +
Sbjct: 105 LGITGSTGKTTTILFLEHLLKRLGIPAFAMGNIGI--------------PI-----LDGM 145
Query: 178 SSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRL 233
GV VE SS L L G N+ +H+DYH AYF AK +
Sbjct: 146 QQPGVR--VVEISSFQLADQEKSYPVLSGGMILNISDNHLDYHGNLSAYFQAKQNI 199
>gnl|CDD|179651 PRK03806, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 438
Score = 49.9 bits (120), Expect = 1e-06
Identities = 64/247 (25%), Positives = 104/247 (42%), Gaps = 54/247 (21%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSY 176
I+A+TG++GKS+V + V ++ + +G ++G I P ALS
Sbjct: 107 IVAITGSNGKSTVTTLVGEMAKAAGW---KVGVGGNIG---------LP-------ALSL 147
Query: 177 LSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHID-YHQTQQAYFNAKMRLFE 235
L + +V +E SS L+ +K A + N+ DH+D Y Q Y AK+R++E
Sbjct: 148 LDQECELYV-LELSSFQLETTS--SLKAAAATILNVTEDHMDRYPFGLQQYRAAKLRIYE 204
Query: 236 ELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVG----------YQGKFIHLKKVCAI 285
++ ADDA + + A R +S G QG+ K +
Sbjct: 205 ----NAKVCVVNADDALTMPI----RGADKRCVSFGVNMGDYHLNRQQGETWLRVKGEKV 256
Query: 286 HNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGR 345
N +++ +S G+ NAL A L A+GI A L+ L +P R
Sbjct: 257 LNTKEMKLS-------------GQHNYTNALAALALADAVGIPRASSLKALTTFTGLPHR 303
Query: 346 FEFVGTN 352
F+ V +
Sbjct: 304 FQLVLEH 310
>gnl|CDD|179872 PRK04690, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 468
Score = 48.7 bits (116), Expect = 3e-06
Identities = 77/362 (21%), Positives = 129/362 (35%), Gaps = 50/362 (13%)
Query: 67 GAEAIVVSSA----YSLQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHPENILAVTG 122
A +VV S Y + +A R + T + + A+R + VTG
Sbjct: 68 AAFDVVVKSPGISPYRPEALAAAARGTP---FIGGTALWFAEHAARDGVVPG--TVCVTG 122
Query: 123 TSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGV 182
T GKS+ + + + + +G + +G I + P+P Y A
Sbjct: 123 TKGKSTTTALLAHLLRAAGHRTALVG---NIGVPLLEVLAPQPAPEYWA----------- 168
Query: 183 THVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKES 242
+E SS+ G + NL +H+D+H + Y+ K+ L E P+
Sbjct: 169 ----IELSSYQTGDVARSGARPELAVVLNLFPEHLDWHGGEARYYRDKLSLVTEGRPRI- 223
Query: 243 PAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVEGKDFDF 302
A++ A D L + + + H + V E FD
Sbjct: 224 -ALLNAADPRLAA------------LQLP-DSEVVWFNHPDGWHVRGDVVYRGEQALFDT 269
Query: 303 -LFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVD 361
L PLPG N A+G+D+ + +P R + +G+ R G YV+
Sbjct: 270 ALVPLPGRHNRGNLCAVLAALEALGLDAVALAPAAAGFRPLPNRLQELGS--RDGITYVN 327
Query: 362 YAHTSNSLEMILKNIRTITSGRIIVVFGCGGDRDQGKRPIMGKIALDLADIAIVT--DDN 419
+ S + L + R+ ++ G G DR +A A + IVT +
Sbjct: 328 DS-ISTTPHASLAALDCFAGRRVALLVG-GHDRGLDWTDFAAHMAQR-APLEIVTMGANG 384
Query: 420 PR 421
PR
Sbjct: 385 PR 386
>gnl|CDD|179286 PRK01368, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 454
Score = 46.8 bits (111), Expect = 1e-05
Identities = 38/156 (24%), Positives = 64/156 (41%), Gaps = 39/156 (25%)
Query: 109 LYGKHPE-NILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSP 167
L+ K +A+TGT+GKS+ + + I +GL + +
Sbjct: 97 LFEKSKNLKFIAITGTNGKSTTTALISHILNSNGLD-YPVA------------------- 136
Query: 168 IYLAKALSYLSSQGVTHVSVEASSHG----LDQHRLDGIKLIAGSFT---NLGRDHIDYH 220
+ GV + +AS G L +LD +K N+ DH+D H
Sbjct: 137 ----------GNIGVPALQAKASKDGYVLELSSFQLDLVKTFTAKIAVLLNITPDHLDRH 186
Query: 221 QTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEV 256
Q Y AK ++F + + K+S A+I D+ Y +E+
Sbjct: 187 QDMDGYIAAKSKIF-DRMDKDSYAVINIDNDYCREI 221
>gnl|CDD|179461 PRK02705, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 459
Score = 46.1 bits (110), Expect = 2e-05
Identities = 53/238 (22%), Positives = 88/238 (36%), Gaps = 27/238 (11%)
Query: 118 LAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTST-ISSFAQDNRLTTPSPIYLAKALSY 176
+ +TGT+GK++V + + I Q +GL++ G A P ++ LS
Sbjct: 112 VGITGTNGKTTVTALLAHILQAAGLNAPACGNIGYAACELALLRSGKAQKPDWIVAELS- 170
Query: 177 LSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEE 236
S Q +E+S + G +T DH++ H T + YF K
Sbjct: 171 -SYQ------IESSPE---------LAPKIGIWTTFTPDHLERHGTLENYFAIKAS---- 210
Query: 237 LLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVE 296
LL + I+ DD Y ++ QGK L + ++ +
Sbjct: 211 LLERSEIRILNGDDPYLRQHRSSWPKG----YWTSTQGKASLLGQADGWILEEGWVVERG 266
Query: 297 GKDFDF-LFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNS 353
F +PG + N L+A G+ + + E L VP R E +GT +
Sbjct: 267 EPLFPLSALKMPGAHNLQNLLLAVAAARLAGLSAEAIAEALRSFPGVPHRLERIGTIN 324
>gnl|CDD|179871 PRK04663, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 438
Score = 45.5 bits (108), Expect = 3e-05
Identities = 61/240 (25%), Positives = 97/240 (40%), Gaps = 42/240 (17%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSY 176
++A+TG++GKS+V + + +G+ ++ I A D
Sbjct: 110 VIAITGSNGKSTVTDLTGVMAKAAGV---KVAVGGNIGVPALD----------------- 149
Query: 177 LSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEE 236
L Q +E SS L+ +KL A +F NL DH+D +Q + Y AK+R+F+
Sbjct: 150 LLEQDAELYVLELSSFQLET--TSSLKLKAAAFLNLSEDHMDRYQGMEDYRQAKLRIFDH 207
Query: 237 LLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQ----GKFIHLKKVCAIHNKQQVT 292
A++ DD K+ A ++++ G+ G H + N Q V
Sbjct: 208 ----AELAVVNRDD---KQTYPDH--AELQLVTFGFDQQDFGLAQHQGREWLADNGQPVL 258
Query: 293 ISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTN 352
S E K L G V N LV L A G+D L+ L+ + R + V N
Sbjct: 259 ASAELK-------LVGRHNVANVLVVLALLDAAGVDYRKALDALKSYTGLTHRCQVVADN 311
>gnl|CDD|179650 PRK03803, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 448
Score = 41.8 bits (99), Expect = 4e-04
Identities = 60/252 (23%), Positives = 98/252 (38%), Gaps = 42/252 (16%)
Query: 104 LFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRLT 163
LFA K P ++A+TG++GKS+V + V ++ + +G A +
Sbjct: 101 LFAR--EAKAP--VIAITGSNGKSTVTTLVGEMAKAAGKR------------VAVGGNIG 144
Query: 164 TPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQ-HRLDGIKLIAGSFTNLGRDHIDYHQT 222
TP AL LS +V +E SS L+ H L+ + N+ DH+D +
Sbjct: 145 TP-------ALDLLSDDPELYV-LELSSFQLETTHSLNAE---VATVLNISEDHMDRYSD 193
Query: 223 QQAYFNAKMRLFEELLPKESPAIIYADDAYSK--EVMKRAHNA-GCRVLSVGYQGKFIHL 279
+AY AK R++ + DDA ++ + + G G
Sbjct: 194 LEAYHQAKHRIY----RGAKQVVFNRDDALTRPLVPDNQPCLSFGLNAPDFDEWGLREGD 249
Query: 280 KKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKL 339
+ H +++ + V L G + NAL A L A G+ +LE L
Sbjct: 250 GETYLAHGFERL-MPVRE------LKLRGSHNLANALAALALGEAAGLPKEAMLEVLRTF 302
Query: 340 HVVPGRFEFVGT 351
+P R E+V
Sbjct: 303 TGLPHRCEWVRE 314
>gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase
A/UDP-N-acetylmuramate--L-alanine ligase; Provisional.
Length = 809
Score = 41.7 bits (98), Expect = 4e-04
Identities = 34/138 (24%), Positives = 51/138 (36%), Gaps = 11/138 (7%)
Query: 261 HNAGCRVLSVGYQGKFIHLKKVCAIH---NKQQ-----VTISVEGKDF-DFLFPLPGEFQ 311
+N C L QG C +H Q+ + G + D L G
Sbjct: 213 YNGDCPRLKGCLQGHSYGFSSSCDLHILSYYQEGWRSYFSAKFLGVVYQDIELNLVGMHN 272
Query: 312 VYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSNSLEM 371
V NA A G+ + +GID + L+ V R E + S DYAH + +
Sbjct: 273 VANAAAAMGIALTLGIDEGAIRNALKGFSGVQRRLERKNS-SETFLFLEDYAHHPSEISC 331
Query: 372 ILKNIRT-ITSGRIIVVF 388
L+ +R + RII +
Sbjct: 332 TLRAVRDAVGLRRIIAIC 349
>gnl|CDD|130153 TIGR01081, mpl,
UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-
diaminopimelate ligase. Alternate name: murein
tripeptide ligase.
Length = 448
Score = 39.4 bits (92), Expect = 0.002
Identities = 70/288 (24%), Positives = 109/288 (37%), Gaps = 53/288 (18%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSS-FQIGPTSTISSFAQDNRLTTPSPIYLAKALS 175
+LAV GT GK++ AS + + ++ GL F IG +F RL SP ++ +A
Sbjct: 104 VLAVAGTHGKTTTASMLAWVLEQCGLKPGFLIG--GVPGNFGVSARLGE-SPFFVIEADE 160
Query: 176 YLSSQGVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFE 235
Y ++ + S + + NL DH D A R F
Sbjct: 161 YDTA------FFDKRSKFVHYRPRTLV------LNNLEFDHADIF----DDLKAIQRQFH 204
Query: 236 ELL---PKESPAIIYADDAYSKEVMKRAHNAGC--RVLSVGYQGKFIHLKKVCAIHNKQQ 290
L+ P E + D K+ + + GC G QG++ Q
Sbjct: 205 HLVRTVPGEGLILCPGRDQSLKDTLAK----GCWSEQEFFGEQGEW------------QA 248
Query: 291 VTISVEGKDFDFL----------FPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLH 340
I+ +G FD L + L G ++NAL+A +G+ E L
Sbjct: 249 EKITADGSHFDVLLDGEKVGEVKWSLVGRHNMHNALMAIAAARHVGVAIEDACEALGSFV 308
Query: 341 VVPGRFEFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTITSG-RIIVV 387
R E G + G +Y D+AH ++E L+ +R G RI+ V
Sbjct: 309 NAKRRLELKGE-ANGITVYDDFAHHPTAIEATLQGLRQKVGGARILAV 355
>gnl|CDD|182774 PRK10846, PRK10846, bifunctional folylpolyglutamate synthase/
dihydrofolate synthase; Provisional.
Length = 416
Score = 36.6 bits (85), Expect = 0.013
Identities = 43/184 (23%), Positives = 74/184 (40%), Gaps = 41/184 (22%)
Query: 305 PLPGEFQVYNALVAAGL--CIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDY 362
PLP NA A + + + + + ++PGRF+ V S R+ +D
Sbjct: 254 PLP------NAATALAALRASGLEVSEQAIRDGIASA-ILPGRFQIV---SESPRVILDV 303
Query: 363 AHTSNSLEMILKNIRTI-TSGRIIVVFGCGGDRDQGKRPIMGKIALDLADIAIVTD---- 417
AH ++ E + ++ + +GR++ V G D+D IA LA + V D
Sbjct: 304 AHNPHAAEYLTGRLKALPKNGRVLAVIGMLHDKD---------IAGTLACLKSVVDDWYC 354
Query: 418 ---DNPRSEDPEKIRAEIIHGIPGFIEKGNRIE----AIRTAIEMLNKQDVLVVAGKGHE 470
+ PR E++ AE H + G + A A+ +D ++V G H
Sbjct: 355 APLEGPRGATAEQL-AE--H-----LGNGKSFDSVAQAWDAAMADAKPEDTVLVCGSFHT 406
Query: 471 TVHI 474
H+
Sbjct: 407 VAHV 410
>gnl|CDD|184454 PRK14016, PRK14016, cyanophycin synthetase; Provisional.
Length = 727
Score = 36.7 bits (86), Expect = 0.014
Identities = 61/276 (22%), Positives = 101/276 (36%), Gaps = 79/276 (28%)
Query: 117 ILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRL----TTPSPIYLAK 172
I+AVTGT+GK++ + I + SG ++G T+T + + T
Sbjct: 482 IVAVTGTNGKTTTTRLIAHILKLSGK---RVGMTTTDGVYIDGRLIDKGDCT-------- 530
Query: 173 ALSYLSSQGV-THVSVEAS----------SHGLDQHRLDGIKLIAGSFTNLGRDH--IDY 219
S++ V + VEA+ GL R D G TN+G DH +
Sbjct: 531 --GPKSARRVLMNPDVEAAVLETARGGILREGLAYDRCD-----VGVVTNIGEDHLGLGG 583
Query: 220 HQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKR------------------AH 261
T + K R+ E + + A++ ADD + +R H
Sbjct: 584 INTLEDLAKVK-RVVVEAVKPDGYAVLNADDPMVAAMAERCKGKVIFFSMDPDNPVIAEH 642
Query: 262 -NAGCRVLSVG------YQGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYN 314
G R + V +G + ++ ++ + + +++ GK F + N
Sbjct: 643 RAQGGRAVYVEGDYIVLAEGGWEI--RIISLAD---IPLTLGGK---------AGFNIEN 688
Query: 315 ALVAAGLCIAIGIDSALVLEHLEKLHV----VPGRF 346
AL A A+GID L+ L PGRF
Sbjct: 689 ALAAIAAAWALGIDIELIRAGLRTFVSDAAQAPGRF 724
>gnl|CDD|179223 PRK01109, PRK01109, ATP-dependent DNA ligase; Provisional.
Length = 590
Score = 33.8 bits (78), Expect = 0.11
Identities = 20/76 (26%), Positives = 39/76 (51%), Gaps = 8/76 (10%)
Query: 1 MKLQDLIYKDFPELINQLSIFPMQWRERKINEVSSDSRHIQ-AGWIFVAIVGNKEDGHLF 59
+ L DL+Y D +L ++ P+ R +K+ E+ ++ ++ A I I + E+ F
Sbjct: 342 VFLFDLLYVDGEDLTDK----PLPERRKKLEEIVKENDKVKLAERI---ITDDVEELEKF 394
Query: 60 IPQAIAQGAEAIVVSS 75
+AI +G E ++ S
Sbjct: 395 FHRAIEEGCEGLMAKS 410
>gnl|CDD|178501 PLN02913, PLN02913, dihydrofolate synthetase.
Length = 510
Score = 31.7 bits (72), Expect = 0.40
Identities = 32/125 (25%), Positives = 53/125 (42%), Gaps = 23/125 (18%)
Query: 291 VTISVEGKDFDFLF------PLPGEFQVYNALVAAGLCIAIG-------IDSALVLEHLE 337
+ I VE D F+ + G Q+ NA+ AA C A+ I A + LE
Sbjct: 288 IVIRVEKDDPLFIELSDVNLRMLGSHQLQNAVTAA--CAALCLRDQGWRISDASIRAGLE 345
Query: 338 KLHVVPGRFEFVGTNS------RGGRIYVDYAHTSNSLEMILKNIRTI-TSGRIIVVFGC 390
++ GR +F+ + G + +D AHT S + ++ I+T R+ +V
Sbjct: 346 NTNL-LGRSQFLTSKEAEVLGLPGATVLLDGAHTKESAKALVDTIKTAFPEARLALVVAM 404
Query: 391 GGDRD 395
D+D
Sbjct: 405 ASDKD 409
>gnl|CDD|162664 TIGR02023, BchP-ChlP, geranylgeranyl reductase. This model
represents a group of geranylgeranyl reductases specific
for the biosyntheses of bacteriochlorophyll and
chlorophyll. It is unclear whether the processes of
isoprenoid ligation to the chlorin ring and reduction of
the geranylgeranyl chain to a phytyl chain are
necessarily ordered the same way in all species (see
introduction to ).
Length = 388
Score = 30.5 bits (69), Expect = 1.1
Identities = 18/54 (33%), Positives = 21/54 (38%), Gaps = 3/54 (5%)
Query: 201 GIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSK 254
G +LI G F L RD T Y K E E+ +I AD A S
Sbjct: 106 GAELIHGLFLKLERDRDGVTLT---YRTPKKGAGGEKGSVEADVVIGADGANSP 156
>gnl|CDD|178517 PLN02929, PLN02929, NADH kinase.
Length = 301
Score = 29.6 bits (67), Expect = 1.9
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 352 NSRGGRIYVDYAHTSNSLEM 371
NSR G IY+D +H +S+++
Sbjct: 259 NSRKGTIYIDGSHVMHSIKL 278
>gnl|CDD|180540 PRK06354, PRK06354, pyruvate kinase; Provisional.
Length = 590
Score = 29.5 bits (67), Expect = 2.1
Identities = 21/57 (36%), Positives = 24/57 (42%), Gaps = 13/57 (22%)
Query: 414 IVTDDNPRSEDPEKIRAEII-----------HGIPGFIEKGNRIEAIRTAIEMLNKQ 459
IV P SE PEK+R I HG E G RI+ IR A + L K
Sbjct: 12 IVATIGPASESPEKLRQLIEAGATTARLNFSHG--DHEEHGARIKNIREASKKLGKT 66
>gnl|CDD|179323 PRK01710, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 458
Score = 29.3 bits (66), Expect = 2.3
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 210 TNLGRDHIDYHQTQQAYFNAKMRLF 234
TNL +H+D H+ + Y +AK +F
Sbjct: 191 TNLSPNHLDVHKDMEEYIDAKKNIF 215
>gnl|CDD|180177 PRK05636, PRK05636, replicative DNA helicase; Provisional.
Length = 505
Score = 28.7 bits (64), Expect = 3.3
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 239 PKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQG 274
P + A YA+ K V++R +AG RV+ +GY+G
Sbjct: 157 PTAANARYYAEIVSEKAVLRRLVDAGTRVVQLGYEG 192
>gnl|CDD|185350 PRK15453, PRK15453, phosphoribulokinase; Provisional.
Length = 290
Score = 28.6 bits (65), Expect = 3.6
Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 4/38 (10%)
Query: 112 KHPENILAVTGTS--GKSSVASFVQQICQRSGLSSFQI 147
KHP I+AVTG+S G ++V ++I +R +++ +
Sbjct: 4 KHP--IIAVTGSSGAGTTTVKRAFEKIFRRENINAAVV 39
>gnl|CDD|163480 TIGR03768, RPA4764, metallophosphoesterase, RPA4764 family. This
model describes a small collection of probable
metallophosphoresterases, related to pfam00149. Members
of this protein family usually have a Sec-independent
TAT (twin-arginine translocation) signal sequence,
N-terminal to the region modeled by this alignment. This
model and TIGR03767 divide a narrow clade of
pfam00149-related enzymes.
Length = 492
Score = 28.7 bits (64), Expect = 3.9
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 199 LDGIKLIAGSFTNLGRDHIDYHQTQQA 225
LDG + S + G D IDY + QA
Sbjct: 125 LDGKPITPSSGAHAGADTIDYQKPFQA 151
>gnl|CDD|179400 PRK02261, PRK02261, methylaspartate mutase subunit S;
Provisional.
Length = 137
Score = 28.4 bits (64), Expect = 4.2
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 59 FIPQAIAQGAEAIVVSSAY 77
FI AI A+AI+VSS Y
Sbjct: 46 FIDAAIETDADAILVSSLY 64
>gnl|CDD|132511 TIGR03471, HpnJ, hopanoid biosynthesis associated radical SAM
protein HpnJ. One of the well-described hopanoid
intermediates is bacteriohopanetetrol. In the conversion
from hopene several reactions must occur in the side
chain for which a radical mechanism might be reasonable.
These include the four (presumably anaerobic)
hydroxylations and a methyl shift.
Length = 472
Score = 28.1 bits (63), Expect = 4.9
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 14/68 (20%)
Query: 255 EVMKRAHNAGCRVLSVGY----QGKFIHLKKVCAIHNKQQVT-------ISVEGKDFDFL 303
E +K G R+L VGY Q ++KK + ++ T I V G F+
Sbjct: 288 ETLKVMKENGLRLLLVGYESGDQQILKNIKKGLTVEIARRFTRDCHKLGIKVHG---TFI 344
Query: 304 FPLPGEFQ 311
LPGE +
Sbjct: 345 LGLPGETR 352
>gnl|CDD|163013 TIGR02776, NHEJ_ligase_prk, DNA ligase D. Members of this protein
family are DNA ligases involved in the repair of DNA
double-stranded breaks by non-homologous end joining
(NHEJ). The system of the bacterial Ku protein
(TIGR02772) plus this DNA ligase is seen in about 20 %
of bacterial genomes to date and at least one archaeon
(Archeoglobus fulgidus). This model describes a central
and a C-terminal domain. These two domains may be
permuted, as in genus Mycobacterium, or divided into
tandem ORFs, and therefore not be identified by this
model. An additional N-terminal 3'-phosphoesterase (PE)
domain present in some but not all examples of this
ligase is not included in the seed alignment for this
model; This alignment models only the central
ATP-dependent ligase domain and the C-terminal
polymerase domain. Most examples of genes for this
ligase are adjacent to the gene for Ku.
Length = 552
Score = 28.4 bits (64), Expect = 4.9
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 332 VLEHLEKLHVVPGRFEFV-GTNSRGGRIYVDY 362
+ E+L + P RF G +R GRI++DY
Sbjct: 460 IAEYLARQ--FPERFTTEMGKKNRVGRIFIDY 489
>gnl|CDD|173541 PTZ00348, PTZ00348, tyrosyl-tRNA synthetase; Provisional.
Length = 682
Score = 27.9 bits (62), Expect = 6.1
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 253 SKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPL 306
S+E+ A+ VL +G Q +KK C I K + T++ L+PL
Sbjct: 116 SEEITNHANTYWRTVLDIGRQNTIARIKKCCTIMGKTEGTLTAA----QVLYPL 165
>gnl|CDD|117168 pfam08594, UPF0300, Uncharacterized protein family (UPF0300). This
family of proteins appear to be specific to S. pombe.
Length = 215
Score = 27.8 bits (62), Expect = 7.0
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 224 QAYFNAKMRLFEELLPKE 241
AY NAK RL+EE LPKE
Sbjct: 159 HAYLNAKERLYEEFLPKE 176
>gnl|CDD|131383 TIGR02330, prpD, 2-methylcitrate dehydratase. Members of this
family are bacterial proteins known or predicted to act
as 2-methylcitrate dehydratase, an enzyme involved in
the methylcitrate cycle of propionate catabolism. A
related clade of archaeal proteins that may or may not
be functionally equivalent is reserved for a future
model and is excluded from this family. The PrpD enzyme
of E. coli is responsible for the minor aconitase
activity (AcnC) not accounted for by AcnA and AcnB.
Length = 468
Score = 27.9 bits (62), Expect = 7.1
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 197 HRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMR--LFEELLPKESPAIIYADDAYSK 254
H + G+ + SF +G DH+ + AKM EE+L S A + D S
Sbjct: 140 HEIQGVIALENSFNRVGLDHVLLVKVASTAVVAKMLGGTREEILNALSHAWV---DGQSL 196
Query: 255 EVMKRAHNAGCR 266
+ A N G R
Sbjct: 197 RTYRHAPNTGSR 208
>gnl|CDD|182649 PRK10689, PRK10689, transcription-repair coupling factor;
Provisional.
Length = 1147
Score = 27.4 bits (61), Expect = 8.0
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 10 DFPELINQLSIFPMQWRERKINEVSSDSRHI 40
+FP + +F QWR+ EV D+ HI
Sbjct: 216 EFPTDKAAIELFRSQWRDT--FEVKRDAEHI 244
>gnl|CDD|177786 PLN00192, PLN00192, aldehyde oxidase.
Length = 1344
Score = 27.4 bits (61), Expect = 8.5
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 14/83 (16%)
Query: 139 RSGLSSFQIGPTSTISSFAQDNRL-----TTPSPIYLAKALSYLSSQGVTHVSVEASSHG 193
+S L S +I P+ T SS + L P P L AL YL++ + VS +ASS G
Sbjct: 397 KSLLLSVEI-PSWTSSSGSDTKLLFETYRAAPRP--LGNALPYLNAAFLAEVSQDASSGG 453
Query: 194 LDQHRLDGIKLIAGSFTNLGRDH 216
++ +L G++ G H
Sbjct: 454 ---IVVNDCRLAFGAY---GTKH 470
>gnl|CDD|184999 PRK15039, PRK15039, transcriptional repressor RcnR to maintain
nickel and cobalt homeostasis; Provisional.
Length = 90
Score = 27.3 bits (60), Expect = 9.2
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 6/50 (12%)
Query: 445 RIEAIRTAIEMLNKQDVLVVAGKGHETVHIVTNGEK-KMSVDCDIIREIL 493
+I AIR A+ L ++ + KGH T HIV G++ K D D++ ++L
Sbjct: 41 QIAAIRGAVNGLMREVI-----KGHLTEHIVHQGDELKREEDLDVVLKVL 85
>gnl|CDD|184314 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 27.2 bits (61), Expect = 9.5
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 5/32 (15%)
Query: 333 LEHLEK--LHVVPGR-FEFVGTNSRGGRIYVD 361
LE LE + V+ GR +EF+ SRG ++YVD
Sbjct: 539 LERLEPGDVFVLGGRTYEFLY--SRGSKVYVD 568
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.321 0.137 0.394
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 8,105,370
Number of extensions: 536961
Number of successful extensions: 1364
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1302
Number of HSP's successfully gapped: 91
Length of query: 497
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 400
Effective length of database: 3,898,497
Effective search space: 1559398800
Effective search space used: 1559398800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.8 bits)