RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 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|31112 COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 475
Score = 379 bits (974), Expect = e-105
Identities = 188/472 (39%), Positives = 253/472 (53%), Gaps = 19/472 (4%)
Query: 32 EVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIRSNTP 91
++ DSR ++ G +FVA G K DGH FI AIA GA A+VV L + + P
Sbjct: 12 GLTLDSRKVKEGDLFVAKPGTKVDGHDFIAGAIAPGAVAVVVEKDIKLAE------AGVP 65
Query: 92 ILVVDNTRKFLSLFASRLYGK--HPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGP 149
++VV T L+ A YG ++ VTGT+GK++ S + QI ++ G + IG
Sbjct: 66 VIVVTGTNGKLTTLALAFYGLPSGKLKVIGVTGTNGKTTTTSLLAQILKKLGKKTALIGT 125
Query: 150 TSTISSFAQDN--RLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIAG 207
S LTTP + L L L +G +E SSHGL Q R++G+ G
Sbjct: 126 EGDELSPGILEPTGLTTPEALDLQNLLRDLLDRGAEIAVMEVSSHGLVQGRVEGVTFDVG 185
Query: 208 SFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRV 267
FTNL RDH+DYH T + Y AK LFE LP A+I DD + + +R NA
Sbjct: 186 VFTNLSRDHLDYHGTMEYYGAAKAVLFE-SLPHSGEAVINPDDGHGLDYKERLKNALGDY 244
Query: 268 LSVGYQGKFIHLKK--VCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAI 325
++ G K L + + G ++ PLPG F VYNAL A +A+
Sbjct: 245 ITYGCDFKRPDLDYRGIEESSSGSDFVFEPSGGIGEYELPLPGLFNVYNALAAVAAALAL 304
Query: 326 GIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTITSGRII 385
G+D +L LE L VPGR E V N G + VDYAH + LE L+ +R +GR+I
Sbjct: 305 GVDLEDILAGLETLKPVPGRMELV--NIGGKLVIVDYAHNPDGLEKALRAVRLHAAGRLI 362
Query: 386 VVFGCGGDRDQGKRPIMGKIALDLADIAIVTDDNPRSEDPEKIRAEIIHGIPG---FIEK 442
VVFGCGGDRD+ KRP MG IA LADI IVT DNPRSEDP I A+I+ GI +
Sbjct: 363 VVFGCGGDRDKSKRPDMGAIAEQLADIVIVTSDNPRSEDPAVILADILAGIEAPEKYEII 422
Query: 443 GNRIEAIRTAIEMLNKQDVLVVAGKGHETVHIVTNGEKKMSVDCDIIREILG 494
+R EAIR A+++ + DV+++AGKGHET I+ K+ D +++RE L
Sbjct: 423 EDREEAIRKALDLAKEGDVVLIAGKGHETYQIML-ELKRPFDDREVVREALL 473
>gnl|CDD|31113 COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 451
Score = 140 bits (354), Expect = 8e-34
Identities = 92/366 (25%), Positives = 157/366 (42%), Gaps = 27/366 (7%)
Query: 27 ERKINEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATI 86
++ VS DSR ++ G +FVA+ G + DGH FI QA+A GA A++V+
Sbjct: 21 PVVVSGVSIDSRKVKPGDLFVALKGERFDGHDFIEQALAAGAAAVLVARPV------LPP 74
Query: 87 RSNTPILVVDNTRKFLSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQ 146
+L+V +T + L A K ++A+TG++GK++ + I G
Sbjct: 75 AIPLVVLLVLDTLEALGKLAKAYRQKFNAKVIAITGSNGKTTTKEMLAAILSTKGKVH-- 132
Query: 147 IGPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIA 206
+T +F N + P + L + + + + G + +
Sbjct: 133 ----ATPGNFN--NEIGLPLTL-----LRLPADTEYAVLEMGMNHPGEIAELSEIARPDI 181
Query: 207 GSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCR 266
TN+G H++ +++ AK + L E AI+ AD+ K + NA +
Sbjct: 182 AVITNIGEAHLEGFGSREGIAEAKAEILAG-LRPEGIAILNADNPLLKNWAAKIGNA--K 238
Query: 267 VLSVG-YQGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAI 325
VLS G G + T+ +EG + +F PLPG V NAL AA L + +
Sbjct: 239 VLSFGLNNGGDFRATNIHLDEEGSSFTLDIEGGEAEFELPLPGRHNVTNALAAAALALEL 298
Query: 326 GIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSN--SLEMILKNIRTITSGR 383
G+D + L++L V GR E + G+ +D ++ +N S+ L + + +
Sbjct: 299 GLDLEEIAAGLKELKPVKGRLEVILL--ANGKTLIDDSYNANPDSMRAALDLLAALPGRK 356
Query: 384 IIVVFG 389
I V G
Sbjct: 357 GIAVLG 362
>gnl|CDD|31114 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell
envelope biogenesis, outer membrane].
Length = 448
Score = 117 bits (294), Expect = 9e-27
Identities = 90/367 (24%), Positives = 148/367 (40%), Gaps = 49/367 (13%)
Query: 102 LSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNR 161
+ LF RL G+ P I+A+TGT+GK++ S + + + +GL + G
Sbjct: 100 IELFY-RLSGEAP--IVAITGTNGKTTTTSLIAHLLKAAGLDALLGG------------N 144
Query: 162 LTTPSPIYLAKALSYLSSQ-GVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYH 220
+ TP AL L +E SS L ++ N+ DH+D H
Sbjct: 145 IGTP-------ALELLEQAEPADVYVLELSSFQL--ETTSSLRPEIAVILNISEDHLDRH 195
Query: 221 QTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLK 280
+ + Y AK+R+ E + A+I ADDAY K + A A S G
Sbjct: 196 GSMENYAAAKLRILEG---QTEVAVINADDAYLKTLADEATKARVIWFSFGEPLADGDYI 252
Query: 281 KVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLH 340
+ K + + + LPG + NAL A L A+G+ +LE L
Sbjct: 253 YDGKLVFKGEKLLPAD------ELKLPGAHNLENALAALALARALGVPPEAILEALSSFT 306
Query: 341 VVPGRFEFVGTNSRGGRIYVDYAHTSN--SLEMILKNIRTITSGRIIVVFGCGGDRDQGK 398
+P R EFVG G ++++ + +N + L G +I++ GGD
Sbjct: 307 GLPHRLEFVGEK--DGVLFINDSKATNVDATLAALSGFD----GPVILI--AGGDDKGAD 358
Query: 399 RPIMGKIALDLADIAIVTDDNPRSEDPEKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNK 458
+ +I + ++ ED EKI A + P + EA++ A E+
Sbjct: 359 FSPLAEILAKVIKKLVL-----IGEDAEKIAAALKEAGPSLVICETLEEAVQLARELAQP 413
Query: 459 QDVLVVA 465
DV++++
Sbjct: 414 GDVVLLS 420
>gnl|CDD|31116 COG0773, MurC, UDP-N-acetylmuramate-alanine ligase [Cell envelope
biogenesis, outer membrane].
Length = 459
Score = 106 bits (265), Expect = 2e-23
Identities = 93/421 (22%), Positives = 161/421 (38%), Gaps = 61/421 (14%)
Query: 67 GAEAIVVSSAYS--LQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHPENILAVTGTS 124
A+ +VVS+A + A + P++ + A + + +AV GT
Sbjct: 66 DADVVVVSNAIKEDNPEIVAALERGIPVI------SRAEMLAELMRFRT---SIAVAGTH 116
Query: 125 GKSSVASFVQQICQRSGLS-SFQIGPTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGVT 183
GK++ S + + + +GL +F IG + +F + RL + ++A+A
Sbjct: 117 GKTTTTSMLAWVLEAAGLDPTFLIG--GILKNFGTNARLGS-GDYFVAEA---------- 163
Query: 184 HVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESP 243
E+ S L + I TN+ DH+DY+ +A A F +P
Sbjct: 164 ---DESDSSFLHYNPRVAI------VTNIEFDHLDYYGDLEAIKQA-FHHFVRNVPFYGR 213
Query: 244 AIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKF-IHLKKVCAIHNKQQVTISVEGKD-FD 301
A++ DD +E++ R V++ G+ + + + + + G++ +
Sbjct: 214 AVVCGDDPNLRELLSRGCW--SPVVTYGFDDEADWRAENIRQDGSGTTFDVLFRGEELGE 271
Query: 302 FLFPLPGEFQVYNALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVD 361
PLPG V NAL A + +GID + E L V RFE G G + D
Sbjct: 272 VKLPLPGRHNVLNALAAIAVARELGIDPEAIAEALASFQGVKRRFELKGE-VNGVTVIDD 330
Query: 362 YAHTSNSLEMILKNIRTIT--SGRIIVVFGCGGDRDQGKRPIMGK-------IALDLADI 412
YAH ++ L R RI+ VF Q R + AL AD
Sbjct: 331 YAHHPTEIKATLAAARQKVPGGKRIVAVF-------QPHRYSRTRDLLDDFAKALSDADE 383
Query: 413 AIVTDDNPRSEDPEKIRAEIIH-----GIPGFIEKGNRIEAIRTAIEMLNKQDVLVVAGK 467
I+ D E+P + PG ++ + + + ++ DV++ G
Sbjct: 384 VILLDVYAAGEEPIEGDVSSEDLAEKIRQPGHVDVPDLDDLVELLAKVAQPGDVILFMGA 443
Query: 468 G 468
G
Sbjct: 444 G 444
>gnl|CDD|145824 pfam02875, Mur_ligase_C, Mur ligase family, glutamate ligase
domain. This family contains a number of related ligase
enzymes which have EC numbers 6.3.2.*. This family
includes: MurC, MurD, MurE, MurF, Mpl and FolC. MurC,
MurD, Mure and MurF catalyse consecutive steps in the
synthesis of peptidoglycan. Peptidoglycan consists of a
sheet of two sugar derivatives, with one of these
N-acetylmuramic acid attaching to a small pentapeptide.
The pentapeptide is is made of L-alanine, D-glutamic
acid, Meso-diaminopimelic acid and D-alanyl alanine. The
peptide moiety is synthesized by successively adding
these amino acids to UDP-N-acetylmuramic acid. MurC
transfers the L-alanine, MurD transfers the D-glutamate,
MurE transfers the diaminopimelic acid, and MurF
transfers the D-alanyl alanine. This family also
includes Folylpolyglutamate synthase that transfers
glutamate to folylpolyglutamate.
Length = 87
Score = 93.2 bits (232), Expect = 1e-19
Identities = 39/88 (44%), Positives = 55/88 (62%), Gaps = 1/88 (1%)
Query: 342 VPGRFEFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTITSGRIIVVFGCGGDRDQGKRPI 401
VPGR E VG N G + DYAH ++LE L+ ++ + GR+I+VFG GGDRD +
Sbjct: 1 VPGRLEVVGEN-NGVLVIDDYAHNPDALEAALQALKELFDGRLILVFGAGGDRDAEFHAL 59
Query: 402 MGKIALDLADIAIVTDDNPRSEDPEKIR 429
+G +A LAD+ I+T D PR+E+P
Sbjct: 60 LGALAAALADVVILTGDYPRAEEPGAAI 87
>gnl|CDD|30633 COG0285, FolC, Folylpolyglutamate synthase [Coenzyme metabolism].
Length = 427
Score = 88.4 bits (219), Expect = 4e-18
Identities = 87/403 (21%), Positives = 149/403 (36%), Gaps = 67/403 (16%)
Query: 105 FASRLYGKHPE-NILAVTGTSGKSSVASFVQQICQRSG----------LSSF-------- 145
RL ++ V GT+GK S +F++ I + +G L SF
Sbjct: 33 LLERLGNPQKSPPVIHVAGTNGKGSTCAFLESILREAGYKVGVYTSPHLLSFNERIRING 92
Query: 146 -QIGPTSTISSFAQ----DNRLTTPSPIYL----AKALSYLSSQGVTHVSVEASSHGLDQ 196
I ++F + L S Y A A Y + V +E G
Sbjct: 93 EPISDEELAAAFERVEEAAGSLDLISLTYFEVLTAMAFLYFAEAKVDVAILEVGLGG--- 149
Query: 197 HRLDGIKLIAGS---FTNLGRDHIDY---HQTQQAYFNAKMRLFEELLPKESPAIIYA-- 248
RLD +I T++G DH + A A ++ PA+I
Sbjct: 150 -RLDATNVIEPDVSVITSIGLDHTAFLGDTLESIAREKAG------IIKAGKPAVIGEQQ 202
Query: 249 DDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPG 308
+ +RA G + +G + + + G D PL G
Sbjct: 203 PPEALNVIAERAEELGAPLFVLGPDFQ--------VLEEGNGFSFQGGGGLLDLPLPLLG 254
Query: 309 E-FQVYNALVAAGLCIAIG--IDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHT 365
Q+ NA +A A+G I + + L + PGR E + S I +D AH
Sbjct: 255 GHHQIENAALAIAALEALGKEISEEAIRKGLANVD-WPGRLERL---SENPLILLDGAHN 310
Query: 366 SNSLEMILKNIRTI--TSGRIIVVFGCGGDRDQGKRPIMGKIALDLADIAIVTDDNPRSE 423
++ + + ++T+ R+ +VFG D+D ++ + + +I PR+
Sbjct: 311 PHAARALAETLKTLFNDRPRLTLVFGMLKDKDIA--GMLAALLPIVDEIYTTPLPWPRAL 368
Query: 424 DPEKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLVVAG 466
D E++ A G G +E + EA+ A+E ++ D+++V G
Sbjct: 369 DAEELLA--FAGERGGVELDDVAEALELALEKADEDDLVLVTG 409
>gnl|CDD|144716 pfam01225, Mur_ligase, Mur ligase family, catalytic domain. This
family contains a number of related ligase enzymes which
have EC numbers 6.3.2.*. This family includes: MurC,
MurD, MurE, MurF, Mpl and FolC. MurC, MurD, Mure and
MurF catalyse consecutive steps in the synthesis of
peptidoglycan. Peptidoglycan consists of a sheet of two
sugar derivatives, with one of these N-acetylmuramic
acid attaching to a small pentapeptide. The pentapeptide
is is made of L-alanine, D-glutamic acid,
Meso-diaminopimelic acid and D-alanyl alanine. The
peptide moiety is synthesized by successively adding
these amino acids to UDP-N-acetylmuramic acid. MurC
transfers the L-alanine, MurD transfers the D-glutamate,
MurE transfers the diaminopimelic acid, and MurF
transfers the D-alanyl alanine. This family also
includes Folylpolyglutamate synthase that transfers
glutamate to folylpolyglutamate.
Length = 76
Score = 67.2 bits (165), Expect = 9e-12
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 29 KINEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIRS 88
+I+ + DSR + G +F+A+ G + DG F AIA GA A+V S+
Sbjct: 1 EIHFIGIDSRGMSPGALFLALKGYRVDGSDFAESAIALGAVAVVSSA------IPRDPNP 54
Query: 89 NTPILVVDNTRKFLSLFASRLY 110
P + V + R+ L+ A+R Y
Sbjct: 55 EVPGIPVIDRREALAELAARFY 76
>gnl|CDD|37736 KOG2525, KOG2525, KOG2525, Folylpolyglutamate synthase [Coenzyme
transport and metabolism].
Length = 496
Score = 41.8 bits (98), Expect = 4e-04
Identities = 81/369 (21%), Positives = 120/369 (32%), Gaps = 69/369 (18%)
Query: 78 SLQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKH---PE-----NILAVTGTSGKSSV 129
SLQ +A I + D+ + L+L R + PE NI+ V GT GK S
Sbjct: 30 SLQSNAALI---EKLRRQDDNPQGLTLPRMRKLLERLGNPEDQNSLNIIHVAGTKGKGST 86
Query: 130 ASFVQQICQRSGL------SSFQIGPTSTIS-----------------SFAQDNRLTT-- 164
+F + I ++ GL S + I + +
Sbjct: 87 CAFTESILRQQGLRTGFYTSPHLLSVRERIRINGQPISEEKFTKYFWEVYERLKSTKLKE 146
Query: 165 -PSPIYL----AKALSYLSSQGVTHVSVEASSHGLDQHRLDGI----KLIAGSFTNLGRD 215
P Y A + V +E G LD K + T+LG D
Sbjct: 147 VSMPTYFEFLTLLAFHVFVKENVDVAVIEVGLGG----ELDATNVIEKPVVCGITSLGLD 202
Query: 216 HIDY-HQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMK-RAHNAGCRVLSVGYQ 273
H + T K +F+E PA + V+K RA G + V
Sbjct: 203 HTSFLGNTLSEIAWEKAGIFKE----GVPAFTVPQPPEALNVLKERASELGVPLFVVPPL 258
Query: 274 GKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVL 333
+ + Q + + L E+ + N VA G+ A+ +
Sbjct: 259 EAYELSGVNLGLIGTHQWSNAS------LAVQLASEWLIQNGRVAEGVLDALQTSGLIPP 312
Query: 334 EHLEKLHVV--PGRFEFVGTNSRGGRIYVDYAHTSNSLEMILKNIRTITSGR-----IIV 386
L L PGR + + RG +D AHT S E K R G +I+
Sbjct: 313 AFLSGLASTDWPGRLQILEYG-RGVTWLLDGAHTKESAEACAKWFRKAVRGLKKLTSLIL 371
Query: 387 VFGCGGDRD 395
+F C DRD
Sbjct: 372 LFNCTSDRD 380
>gnl|CDD|177020 CHL00081, chlI, Mg-protoporyphyrin IX chelatase.
Length = 350
Score = 31.5 bits (72), Expect = 0.49
Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 392 GDRDQGKRPIMGKIALDLADIAIVTDD--NPRSEDPEKIRAEIIHGIPGFIEKGNRIEAI 449
GDR GK + + L +I +V DD N DPE + E+ I+ G IE
Sbjct: 45 GDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSDEVREA----IQNGETIETE 100
Query: 450 RTAIEM 455
+ I M
Sbjct: 101 KIKIPM 106
>gnl|CDD|31262 COG1062, AdhC, Zn-dependent alcohol dehydrogenases, class III
[Energy production and conversion].
Length = 366
Score = 31.3 bits (71), Expect = 0.56
Identities = 28/118 (23%), Positives = 39/118 (33%), Gaps = 21/118 (17%)
Query: 379 ITSGRIIVVFGCGGDRDQGKRPIMG-KIALDLADIAIVTDD---------------NPRS 422
+ G + VFG GG G I G K A IA+ + NP+
Sbjct: 183 VEPGDTVAVFGLGG---VGLAAIQGAKAAGAGRIIAVDINPEKLELAKKFGATHFVNPKE 239
Query: 423 EDP--EKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLVVAGKGHETVHIVTNG 478
D E I G E +E +R A+E ++ V+ G I T
Sbjct: 240 VDDVVEAIVELTDGGADYAFECVGNVEVMRQALEATHRGGTSVIIGVAGAGQEISTRP 297
>gnl|CDD|35667 KOG0446, KOG0446, KOG0446, Vacuolar sorting protein VPS1, dynamin,
and related proteins [Intracellular trafficking,
secretion, and vesicular transport, General function
prediction only].
Length = 657
Score = 30.7 bits (69), Expect = 0.87
Identities = 28/97 (28%), Positives = 44/97 (45%), Gaps = 10/97 (10%)
Query: 390 CGGDRDQGKRPIMGKI-ALDLADIAIVTD----DNPRSEDPEKIRAEIIHGIPGFIEKGN 444
G ++ PI KI + +A++ +V P ++ P+ I EI I +IEK N
Sbjct: 111 TGSNKGISPVPITLKIFSALVANLTLVDLPGLTKVPVADQPDDIEEEIKSMIEEYIEKPN 170
Query: 445 R-IEAIRTAIEMLNKQDVLVVAG----KGHETVHIVT 476
R I A+ A + LVVA G T+ ++T
Sbjct: 171 RIILAVTPANSDIATSPALVVAREVDPGGSRTLEVIT 207
>gnl|CDD|32991 COG3178, COG3178, Predicted phosphotransferase related to Ser/Thr
protein kinases [General function prediction only].
Length = 351
Score = 30.7 bits (69), Expect = 0.92
Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 15/71 (21%)
Query: 113 HPENILAVTGTSGKSSVASFVQQICQRSGLSSFQ---IGPTS-TISSFAQDNRLTTPSPI 168
H N++ +G R G+ FQ IGP + ++S +D R+T
Sbjct: 208 HSRNLMWTADRAGAD-----------RVGVLDFQDALIGPIAYDVASLLRDARVTWSPER 256
Query: 169 YLAKALSYLSS 179
LA Y ++
Sbjct: 257 ELALLDRYWAA 267
>gnl|CDD|33790 COG4031, COG4031, Predicted metal-binding protein [General function
prediction only].
Length = 227
Score = 30.4 bits (68), Expect = 1.2
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 331 LVLEHLEKLHVVPGRFEFVGTNSRGG-RIYVDYAHTSNSLEMILKNIRTITSGRIIVVFG 389
LV +H V+PG G+ GG R+ V A +L ++L ++ R++
Sbjct: 148 LVAQHPYVKKVIPGVISAKGSAGGGGVRLKVTRADARGNLRLLLSEGSSVQEIRVVTT-- 205
Query: 390 CGGDRDQGKR 399
G R++G+R
Sbjct: 206 -AGSREEGER 214
>gnl|CDD|133175 cd05043, PTK_Ryk, Pseudokinase domain of Ryk (Receptor related to
tyrosine kinase). Protein Tyrosine Kinase (PTK) family;
Receptor related to tyrosine kinase (Ryk); pseudokinase
domain. The PTKc (catalytic domain) family to which this
subfamily belongs, is part of a larger superfamily that
includes the catalytic domains of other kinases such as
protein serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Ryk is a
receptor tyr kinase (RTK) containing an extracellular
region with two leucine-rich motifs, a transmembrane
segment, and an intracellular inactive pseudokinase
domain. The extracellular region of Ryk shows homology
to the N-terminal domain of Wnt inhibitory factor-1
(WIF) and serves as the ligand (Wnt) binding domain of
Ryk. Ryk is expressed in many different tissues both
during development and in adults, suggesting a
widespread function. It acts as a chemorepulsive axon
guidance receptor of Wnt glycoproteins and is
responsible for the establishment of axon tracts during
the development of the central nervous system. In
addition, studies in mice reveal that Ryk is essential
in skeletal, craniofacial, and cardiac development.
Thus, it appears Ryk is involved in signal transduction
despite its lack of kinase activity. Ryk may function as
an accessory protein that modulates the signals coming
from catalytically active partner RTKs such as the Eph
receptors.
Length = 280
Score = 29.7 bits (67), Expect = 2.0
Identities = 21/93 (22%), Positives = 34/93 (36%), Gaps = 25/93 (26%)
Query: 106 ASRLYGKHPENILAVTGTS--------------GKSSVASFVQQICQRSGLSSFQIGPTS 151
+ LYG +NIL + ++ F+QQ C+ ++ Q T
Sbjct: 59 SCLLYGLSHQNILPILHVCIEDGEPPFVLYPYMNWGNLKLFLQQ-CRLGEANNPQALSTQ 117
Query: 152 TISSFAQDNRLTTPSPIYLAKALSYLSSQGVTH 184
+ A I +A +SYL +GV H
Sbjct: 118 QLVHMA----------IQIACGMSYLHKRGVIH 140
>gnl|CDD|176240 cd08279, Zn_ADH_class_III, Class III alcohol dehydrogenase.
Glutathione-dependent formaldehyde dehydrogenases (FDHs,
Class III ADH) are members of the zinc-dependent/medium
chain alcohol dehydrogenase family. FDH converts
formaldehyde and NAD(P) to formate and NAD(P)H. The
initial step in this process the spontaneous formation
of a S-(hydroxymethyl)glutathione adduct from
formaldehyde and glutathione, followed by FDH-mediated
oxidation (and detoxification) of the adduct to
S-formylglutathione. NAD(P)(H)-dependent oxidoreductases
are the major enzymes in the interconversion of alcohols
and aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. Class III ADH are also known as
glutathione-dependent formaldehyde dehydrogenase (FDH),
which convert aldehydes to corresponding carboxylic acid
and alcohol. ADH is a member of the medium chain
alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 363
Score = 29.0 bits (66), Expect = 2.7
Identities = 31/113 (27%), Positives = 41/113 (36%), Gaps = 19/113 (16%)
Query: 379 ITSGRIIVVFGCGGDRD---QGKRPIMGK---IALDLAD----IAIV---TDD-NPRSED 424
+ G + V GCGG QG R I G IA+D +A T N +D
Sbjct: 180 VRPGDTVAVIGCGGVGLNAIQGAR-IAGASRIIAVDPVPEKLELARRFGATHTVNASEDD 238
Query: 425 PEKIRAEIIHGIPGF---IEKGNRIEAIRTAIEMLNKQDVLVVAGKGHETVHI 474
+ ++ G G E R IR A+ M K VV G G +
Sbjct: 239 AVEAVRDLTDGR-GADYAFEAVGRAATIRQALAMTRKGGTAVVVGMGPPGETV 290
>gnl|CDD|176133 cd08442, PBP2_YofA_SoxR_like, The C-terminal substrate binding
domain of LysR-type transcriptional regulators, YofA and
SoxR, contains the type 2 periplasmic binding fold.
YofA is a LysR-like transcriptional regulator of cell
growth in Bacillus subtillis. YofA controls cell
viability and the formation of constrictions during cell
division. YofaA positively regulates expression of the
cell division gene ftsW, and thus is essential for cell
viability during stationary-phase growth of Bacillus
substilis. YofA shows significant homology to SoxR from
Arthrobacter sp. TE1826. SoxR is a negative regulator
for the sarcosine oxidase gene soxA. Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine,
which is involved in the metabolism of creatine and
choline. The topology of this substrate-binding domain
is most similar to that of the type 2 periplasmic
binding proteins (PBP2), which are responsible for the
uptake of a variety of substrates such as phosphate,
sulfate, polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 193
Score = 29.1 bits (66), Expect = 3.0
Identities = 37/169 (21%), Positives = 61/169 (36%), Gaps = 52/169 (30%)
Query: 181 GVTHVSVEASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAKMRLFEE---- 236
G T ++ + + RLDG +AG +H Q +F+E
Sbjct: 36 GTTGALIQ----AVLEGRLDGA-FVAGPV-----EHPRLEQEP---------VFQEELVL 76
Query: 237 LLPKESPAIIYADDAYSKEVMKRAHNAGCRVLSVGYQGKFIHLKKVCAIHNKQQVTISVE 296
+ PK P + A+D ++ A AGC Y+ + + + +
Sbjct: 77 VSPKGHPPVSRAEDLAGSTLL--AFRAGC-----SYRRRLEDWLAEEGVSPGKIM----- 124
Query: 297 GKDFDFLFPLPGEFQVYNAL---VAAGLCIAIGIDSALVLEHLEKLHVV 342
EF Y+A+ VAAG+ IA+ S VL+ L+ V
Sbjct: 125 ------------EFGSYHAILGCVAAGMGIALLPRS--VLDSLQGRGSV 159
>gnl|CDD|31522 COG1331, COG1331, Highly conserved protein containing a thioredoxin
domain [Posttranslational modification, protein
turnover, chaperones].
Length = 667
Score = 28.7 bits (64), Expect = 3.2
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 5/60 (8%)
Query: 314 NALVAAGLCIAIGIDSALVLEHLEKLHVVPGRFEFVGTNSRGGRIYVDYAHTSNSLEMIL 373
N L+ A L A VL E L +F+ N R+ Y ++ +L
Sbjct: 413 NGLMIAALAEA-----GRVLGDPEYLEAAERAADFILDNLYVDRLLRRYRGGEAAVAGLL 467
>gnl|CDD|37624 KOG2413, KOG2413, KOG2413, Xaa-Pro aminopeptidase [Amino acid
transport and metabolism].
Length = 606
Score = 28.3 bits (63), Expect = 4.8
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 127 SSVASFVQQICQRSGLSSFQIGPTSTI---SSFAQDNRLTTPSPIYLAKAL 174
+ S ++ I P + +D+ + PSPI AKA+
Sbjct: 257 DQIWSDIKNWASAFADKKIWISPETNYGIGELIGEDHSMIDPSPISRAKAI 307
>gnl|CDD|33514 COG3719, Rna, Ribonuclease I [Translation, ribosomal structure and
biogenesis].
Length = 249
Score = 28.4 bits (63), Expect = 4.9
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 222 TQQAYFNAKMRLFEELLPKESPAIIYADDAYS 253
+Q+AYF RLFEEL K P D +
Sbjct: 150 SQEAYFATTRRLFEEL--KLPPVRKLLADGKT 179
>gnl|CDD|39608 KOG4407, KOG4407, KOG4407, Predicted Rho GTPase-activating protein
[General function prediction only].
Length = 1973
Score = 28.2 bits (62), Expect = 5.4
Identities = 19/83 (22%), Positives = 27/83 (32%), Gaps = 3/83 (3%)
Query: 62 QAIAQGAEAIVVSSAYSLQDFSATIRSNTPILVVDNTRKFLSLFASRLYGKHPENILAVT 121
Q ++ A + + LQ F A S+ P + R P + AV
Sbjct: 758 QQTSRSLPAPHPPATHRLQRFIALFNSSKPSDGSGEHKPSRM---KRSRTSLPASRAAVP 814
Query: 122 GTSGKSSVASFVQQICQRSGLSS 144
GT +S V Q LS
Sbjct: 815 GTILQSGVFRQTPVKHQEIALSK 837
>gnl|CDD|107248 cd01391, Periplasmic_Binding_Protein_Type_1, Type 1 periplasmic
binding fold superfamily. Type 1 periplasmic binding
fold superfamily. This model and hierarchy represent the
ligand binding domains of the LacI family of
transcriptional regulators, periplasmic binding proteins
of the ABC-type transport systems, the family C
G-protein couples receptors (GPCRs), membrane bound
guanylyl cyclases including the family of natriuretic
peptide receptors (NPRs), and the N-terminal
leucine/isoleucine/valine- binding protein (LIVBP)-like
domains of the ionotropic glutamate receptors (iGluRs).
In LacI-like transcriptional regulator and the bacterial
periplasmic binding proteins the ligands are
monosaccharides including lactose, ribose, fructose,
xylose, arabinose, galactose/glucose, and other sugars,
with a few exceptions. Periplasmic sugar binding
proteins are one of the components of ABC transporters
and are involved in the active transport of
water-soluble ligands. The LacI family of proteins
consists of transcriptional regulators related to the
lac repressor. In this case, the sugar binding domain
binds a sugar which changes the DNA binding activity of
the repressor domain. The periplasmic binding proteins
are the primary receptors for chemotaxis and transport
of many sugar based solutes. The core structures of
periplasmic binding proteins are classified into two
types, and they differ in number and order of beta
strands: type 1 has six beta strands, while type 2 has
five beta strands per sub-domain. These two structural
folds are thought to be distantly related via a common
ancestor. Notably, while the N-terminal LIVBP-like
domain of iGluRs belongs to the type 1
periplasmic-binding fold protein superfamily, the
glutamate-binding domain of the iGluR is structurally
similar to the type 2 periplasmic-binding fold.
Length = 269
Score = 27.9 bits (62), Expect = 6.3
Identities = 29/155 (18%), Positives = 51/155 (32%), Gaps = 11/155 (7%)
Query: 115 ENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTSTISSFAQDNRL--TTPSPIYLAK 172
+ + + G SS A V ++ +G+ + +T + P +
Sbjct: 57 QGVDGIIGPPS-SSSALAVVELAAAAGIP--VVSLDATAPDLTGYPYVFRVGPDNEQAGE 113
Query: 173 AL-SYLSSQGVTHVSV-EASSHGLDQHRLDGIKLIAGSFTNLGRDHIDYHQTQQAYFNAK 230
A YL+ +G V++ + RL+G K + F A
Sbjct: 114 AAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALKKAGIEVVAIEYGDLDTEKGFQA- 172
Query: 231 MRLFEELLPKESP-AIIYADDAYSKEVMKRAHNAG 264
L + L P AI +D + +K A AG
Sbjct: 173 --LLQLLKAAPKPDAIFACNDEMAAGALKAAREAG 205
>gnl|CDD|176187 cd05284, arabinose_DH_like, D-arabinose dehydrogenase. This group
contains arabinose dehydrogenase (AraDH) and related
alcohol dehydrogenases. AraDH is a member of the medium
chain dehydrogenase/reductase family and catalyzes the
NAD(P)-dependent oxidation of D-arabinose and other
pentoses, the initial step in the metabolism of
d-arabinose into 2-oxoglutarate. Like the alcohol
dehydrogenases, AraDH binds a zinc in the catalytic
cleft as well as a distal structural zinc. AraDH forms
homotetramers as a dimer of dimers. AraDH replaces a
conserved catalytic His with replace with Arg, compared
to the canonical ADH site. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 340
Score = 27.9 bits (63), Expect = 6.4
Identities = 28/142 (19%), Positives = 44/142 (30%), Gaps = 47/142 (33%)
Query: 374 KNIRTITSGRIIVVFGCGG--------------------DRDQGKRPIMGKIALDL-ADI 412
K + + G +VV G GG DR + K+A L AD
Sbjct: 160 KALPYLDPGSTVVVIGVGGLGHIAVQILRALTPATVIAVDRSEEAL----KLAERLGADH 215
Query: 413 AIVTDDNPRSEDPEKIRAEIIHGIPGFIEKGNRI--------EAIRTAIEMLNKQDVLVV 464
+ D+ E +R E+ G +G E + A ++L K V+
Sbjct: 216 VLNASDDVVEE----VR-ELTGG------RGADAVIDFVGSDETLALAAKLLAKGGRYVI 264
Query: 465 ---AGKGHETVHIVTNGEKKMS 483
G G + E +
Sbjct: 265 VGYGGHGRLPTSDLVPTEISVI 286
>gnl|CDD|32226 COG2043, COG2043, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 237
Score = 27.9 bits (62), Expect = 7.1
Identities = 19/81 (23%), Positives = 25/81 (30%), Gaps = 14/81 (17%)
Query: 330 ALVLEHLEKLHVVPGRFEFVG------------TNSRGGRIYVDYAHTSNSLEMILKNIR 377
ALV LEK P + GGRI D+A + +
Sbjct: 123 ALVYAPLEKAEFEPDVVVIICKPAQAMRLIQAYLYFMGGRINGDFAGIQSLCADAV--AL 180
Query: 378 TITSGRIIVVFGCGGDRDQGK 398
+G I + GC G R
Sbjct: 181 PYLTGEINITLGCSGSRKYAG 201
>gnl|CDD|29513 cd01192, INT_P22_C, P22-like integrases, site-specific
recombinases, DNA breaking-rejoining enzymes, C-terminal
catalytic domain. This CD includes various bacterial and
phage integrases, including those similar to phage
P22-like integrases, DLP12 and APSE-1..
Length = 177
Score = 27.6 bits (61), Expect = 7.6
Identities = 11/46 (23%), Positives = 20/46 (43%)
Query: 102 LSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQI 147
L + + G H + A G + + +Q QR+G+S F+
Sbjct: 77 LQVLKRQKAGAHKPWVFAGAGGDPRIDSKTAWRQALQRAGISDFRW 122
>gnl|CDD|107389 cd06394, PBP1_iGluR_Kainate_KA1_2, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the KA1 and KA2 subunits of Kainate receptor.
N-terminal leucine/isoleucine/valine-binding protein
(LIVBP)-like domain of the KA1 and KA2 subunits of
Kainate receptor. While this N-terminal domain belongs
to the periplasmic-binding fold type I superfamily, the
glutamate-binding domain of the iGluR is structurally
homologous to the periplasmic-binding fold type II. The
LIVBP-like domain of iGluRs is thought to play a role in
the initial assembly of iGluR subunits, but it is not
well understood how this domain is arranged and
functions in intact iGluR. There are five types of
kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2,
which are structurally similar to AMPA and NMDA subunits
of ionotropic glutamate receptors. KA1 and KA2 subunits
can only form functional receptors with one of the
GluR5-7 subunits. Moreover, GluR5-7 can also form
functional homomeric receptor channels activated by
kainate and glutamate when expressed in heterologous
systems. Kainate receptors are involved in excitatory
neurotransmission by activating postsynaptic receptors
and in inhibitory neurotransmission by modulating
release of the inhibitory neurotransmitter GABA through
a presynaptic mechanism. Kainate receptors are closely
related to AMPA receptors. In contrast of AMPA
receptors, kainate receptors play only a minor role in
signaling at synapses and their function is not well
defined.
Length = 333
Score = 27.5 bits (61), Expect = 7.7
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 114 PENILAVTGTSGKSSVASFVQQICQRSGLSSFQIGPTST 152
P+ +++V G S + +S V IC + F++GP T
Sbjct: 63 PKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEET 101
>gnl|CDD|35838 KOG0618, KOG0618, KOG0618, Serine/threonine phosphatase 2C
containing leucine-rich repeats, similar to SCN
circadian oscillatory protein (SCOP) [Signal
transduction mechanisms].
Length = 1081
Score = 27.7 bits (61), Expect = 7.7
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 128 SVASFVQQI-CQRSGLSSFQIGPTSTISSFAQDNRLTTPSPIYLAKALSYLS 178
S + ++ + C+R+ LS +I S + +A N LTT + L YL
Sbjct: 196 SNLANLEVLHCERNQLSELEISGPSLTALYADHNPLTTLDVHPVPLNLQYLD 247
>gnl|CDD|145988 pfam03136, Pup_ligase, Pup-ligase protein. Pupylation is a novel
protein modification system found in some bacteria. This
family of proteins are the enzyme that can conjugate
proteins of the Pup family to lysine residues in target
proteins marking them for degradation. The archetypal
protein in this family is PafA (proteasome accessory
factor) from Mycobacterium tuberculosis. It has been
suggested that these proteins are related to
gamma-glutamyl-cysteine synthetases.
Length = 444
Score = 27.6 bits (62), Expect = 8.3
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 355 GGRIYVDYAH 364
G R+YVD+AH
Sbjct: 75 GARLYVDHAH 84
>gnl|CDD|38868 KOG3664, KOG3664, KOG3664, Predicted patched transmembrane receptor
[Signal transduction mechanisms].
Length = 999
Score = 27.7 bits (61), Expect = 8.5
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 6/71 (8%)
Query: 291 VTISVEGKDFDFLFPLPGEFQVYNALVAAGLCIAIGIDSALVL------EHLEKLHVVPG 344
+ +S+ F + L +F Y LVA + I IG D + +L LH
Sbjct: 359 ICLSLGVALFFYAVVLGIDFFPYLNLVAVVVIIGIGADDVFLFLKIYERSNLRMLHTQSQ 418
Query: 345 RFEFVGTNSRG 355
F S
Sbjct: 419 SASFFLELSDH 429
>gnl|CDD|176239 cd08278, benzyl_alcohol_DH, Benzyl alcohol dehydrogenase. Benzyl
alcohol dehydrogenase is similar to liver alcohol
dehydrogenase, but has some amino acid substitutions
near the active site, which may determine the enzyme's
specificity of oxidizing aromatic substrates. Also
known as aryl-alcohol dehydrogenases, they catalyze the
conversion of an aromatic alcohol + NAD+ to an aromatic
aldehyde + NADH + H+. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 365
Score = 27.5 bits (62), Expect = 9.9
Identities = 25/108 (23%), Positives = 36/108 (33%), Gaps = 28/108 (25%)
Query: 380 TSGRIIVVFGCGG--------DRDQGKRPIMGKIALDL------------ADIAIVTDDN 419
G I VFG G + G I IA+D+ A I N
Sbjct: 185 RPGSSIAVFGAGAVGLAAVMAAKIAGCTTI---IAVDIVDSRLELAKELGATHVI----N 237
Query: 420 PRSEDP-EKIRAEIIHGIPGFIEKGNRIEAIRTAIEMLNKQDVLVVAG 466
P+ ED IR G+ ++ I A++ L + L + G
Sbjct: 238 PKEEDLVAAIREITGGGVDYALDTTGVPAVIEQAVDALAPRGTLALVG 285
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.137 0.394
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,870,572
Number of extensions: 315438
Number of successful extensions: 1057
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1037
Number of HSP's successfully gapped: 46
Length of query: 497
Length of database: 6,263,737
Length adjustment: 98
Effective length of query: 399
Effective length of database: 4,146,055
Effective search space: 1654275945
Effective search space used: 1654275945
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 (26.5 bits)