RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781096|ref|YP_003065509.1|
UDP-N-acetylmuramate--L-alanine ligase [Candidatus Liberibacter
asiaticus str. psy62]
(474 letters)
>gnl|CDD|31116 COG0773, MurC, UDP-N-acetylmuramate-alanine ligase [Cell envelope
biogenesis, outer membrane].
Length = 459
Score = 550 bits (1420), Expect = e-157
Identities = 225/463 (48%), Positives = 307/463 (66%), Gaps = 12/463 (2%)
Query: 4 PQGMGPIHFVGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHKVEN 63
+ + IHF+GIGGIGMSG+AE+L N G++V GSD+ P QRL GI++ IGH EN
Sbjct: 4 MKTLPKIHFIGIGGIGMSGLAEILLNLGYKVSGSDLAESPMTQRLEALGIEIFIGHDAEN 63
Query: 64 IDNAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKTTTTS 123
I +A+++V+S AI +DN E +AA ER IP+I R+EMLA LMR R SI+V+GTHGKTTTTS
Sbjct: 64 ILDADVVVVSNAIKEDNPEIVAALERGIPVISRAEMLAELMRFRTSIAVAGTHGKTTTTS 123
Query: 124 LIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVVTNI 183
++A +LE DPT + GGI+ ++GTNAR+G+ ++ V EADESD +F+ + +VTNI
Sbjct: 124 MLAWVLEAAGLDPTFLIGGILKNFGTNARLGSGDYFVAEADESDSSFLHYNPRVAIVTNI 183
Query: 184 DPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQ 243
+ +HLDYYGD AI+ AF+ F+ N+PFYG AVVC D P +R L++R ++TYG +
Sbjct: 184 EFDHLDYYGDLEAIKQAFHHFVRNVPFYGRAVVCGDDPNLRELLSRGCWSPVVTYGFDDE 243
Query: 244 ADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGL 303
AD R NIR+ + FDV +G + ++ LPL G HN+ NA A+IAVA +LG+
Sbjct: 244 ADWRAENIRQDGSGTTFDVLFRGE------ELGEVKLPLPGRHNVLNALAAIAVARELGI 297
Query: 304 SSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICP--RKIIA 361
E + + LASF G+KRRF L G N V V DDY HHP EI + LAA RQ P ++I+A
Sbjct: 298 DPEAIAEALASFQGVKRRFELKGEVNGVTVIDDYAHHPTEIKATLAAARQKVPGGKRIVA 357
Query: 362 IHQPHRYSRLSTLFDQFSSCFGDADIVLISPVYSAGEKEIPGF-SSPELVKNIKLQGHPQ 420
+ QPHRYSR L D F+ DAD V++ VY+AGE+ I G SS +L + I+ GH
Sbjct: 358 VFQPHRYSRTRDLLDDFAKALSDADEVILLDVYAAGEEPIEGDVSSEDLAEKIRQPGH-- 415
Query: 421 AYYMDSFDHLVSKILAIAEPGDFIIFFGAGNITQWAASLIGEL 463
+ D LV + +A+PGD I+F GAG+I + A L+ L
Sbjct: 416 -VDVPDLDDLVELLAKVAQPGDVILFMGAGDIGKIARELLEAL 457
>gnl|CDD|31114 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell
envelope biogenesis, outer membrane].
Length = 448
Score = 166 bits (421), Expect = 1e-41
Identities = 113/463 (24%), Positives = 195/463 (42%), Gaps = 61/463 (13%)
Query: 1 MLNPQGMGPIHFVGIGGIGMSGIAEVLHNTGHQVQGSD---VILGPNVQRLHKQGIKVSI 57
M+ + +G+G G++ A L G +V SD G Q L +GI+V +
Sbjct: 1 MMEDFQGKKVLVLGLGKSGLA-AARFLLKLGAEVTVSDDRPAPEGLAAQPLLLEGIEVEL 59
Query: 58 G-HKVENIDNAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTH 116
G H E++ +++V S I + AA+ I II E+ L ++++GT+
Sbjct: 60 GSHDDEDLAEFDLVVKSPGIPPTHPLVEAAKAAGIEIIGDIELFYRLSGEAPIVAITGTN 119
Query: 117 GKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNA-----RIGTSEWIVVEADESDGTFI 171
GKTTTTSLIA LL+ D ++ G I GT A + ++ V+E S
Sbjct: 120 GKTTTTSLIAHLLKAAGLD-ALLGGNI----GTPALELLEQAEPADVYVLEL--SSFQLE 172
Query: 172 RLPS---DIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIA 228
S +I V+ NI +HLD +G AA + ++ AV+ D +++L
Sbjct: 173 TTSSLRPEIAVILNISEDHLDRHGSMENYAAAKLRILEGQTEV--AVINADDAYLKTLAD 230
Query: 229 RIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNI 288
++I + + Y G+ +F K ++ L L G HN+
Sbjct: 231 EATKARVIWFSF---GEPLADGDYIYDGKLVF---------KGEKLLPADELKLPGAHNL 278
Query: 289 SNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVL 348
NA A++A+A LG+ E + + L+SF+G+ R VG + V +D + + L
Sbjct: 279 ENALAALALARALGVPPEAILEALSSFTGLPHRLEFVGEKDGVLFIND--SKATNVDATL 336
Query: 349 AAVRQICPRKIIAIHQPHRYSRLSTLFDQFSSCFGD---ADIVLISPVYSAGEKEI--PG 403
AA+ +I I GD AD ++ + + K++ G
Sbjct: 337 AALSGF-DGPVILI------------------AGGDDKGADFSPLAEILAKVIKKLVLIG 377
Query: 404 FSSPELVKNIKLQGHPQAYYMDSFDHLVSKILAIAEPGDFIIF 446
+ ++ +K G P ++ + V +A+PGD ++
Sbjct: 378 EDAEKIAAALKEAG-PSLVICETLEEAVQLARELAQPGDVVLL 419
>gnl|CDD|31113 COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 451
Score = 125 bits (314), Expect = 4e-29
Identities = 76/264 (28%), Positives = 129/264 (48%), Gaps = 16/264 (6%)
Query: 108 KSISVSGTHGKTTTTSLIAALLEQ-GK--FDPTVINGGIINSYGTNARIGTSEWIVVEAD 164
K I+++G++GKTTT ++AA+L GK P N I +E+ V+E
Sbjct: 104 KVIAITGSNGKTTTKEMLAAILSTKGKVHATPGNFNNEIGLPLTLLRLPADTEYAVLEMG 163
Query: 165 ESDGTFIRL-----PSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMD 219
+ I DI V+TNI HL+ +G I A + + + G A++ D
Sbjct: 164 MNHPGEIAELSEIARPDIAVITNIGEAHLEGFGSREGIAEAKAEILAGLRPEGIAILNAD 223
Query: 220 HPEVRSLIARIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLS 279
+P +++ A+I N K++++G + D R +NI S F + ++G +
Sbjct: 224 NPLLKNWAAKIGNAKVLSFGLNNGGDFRATNIHLDEEGSSFTLDIEGGEA-------EFE 276
Query: 280 LPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD-YG 338
LPL G HN++NA A+ A+A +LGL E++ GL +K R ++ + N + DD Y
Sbjct: 277 LPLPGRHNVTNALAAAALALELGLDLEEIAAGLKELKPVKGRLEVILLANGKTLIDDSYN 336
Query: 339 HHPIEISSVLAAVRQICPRKIIAI 362
+P + + L + + RK IA+
Sbjct: 337 ANPDSMRAALDLLAALPGRKGIAV 360
>gnl|CDD|31112 COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 475
Score = 115 bits (288), Expect = 3e-26
Identities = 74/280 (26%), Positives = 108/280 (38%), Gaps = 36/280 (12%)
Query: 110 ISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTS------------- 156
I V+GT+GKTTTTSL+A +L++ +I G + T
Sbjct: 94 IGVTGTNGKTTTTSLLAQILKKLGKKTALI-GTEGDELSPGILEPTGLTTPEALDLQNLL 152
Query: 157 --------EWIVVEADESDGTFIRLPS----DIVVVTNIDPEHLDYYGDFNAIRAAFYKF 204
E V+E S G D+ V TN+ +HLDY+G AA
Sbjct: 153 RDLLDRGAEIAVMEV-SSHGLVQGRVEGVTFDVGVFTNLSRDHLDYHGTMEYYGAAKAVL 211
Query: 205 IDNIPFYGFAVVC--MDHPEVRSLIARIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDV 262
+++P G AV+ H + ITYG + + S V
Sbjct: 212 FESLPHSGEAVINPDDGHGLDYKERLKNALGDYITYGCDFKRPDLDYRGIEESSSGSDFV 271
Query: 263 SVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRF 322
I + LPL G N+ NA A++A A LG+ ED+ GL + + R
Sbjct: 272 FEPSGG------IGEYELPLPGLFNVYNALAAVAAALALGVDLEDILAGLETLKPVPGRM 325
Query: 323 TLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICPRKIIAI 362
LV + V DY H+P + L AVR ++I +
Sbjct: 326 ELVNI-GGKLVIVDYAHNPDGLEKALRAVRLHAAGRLIVV 364
>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 = 61.4 bits (150), Expect = 5e-10
Identities = 29/97 (29%), Positives = 39/97 (40%), Gaps = 24/97 (24%)
Query: 9 PIHFVGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHKVENIDNAE 68
IHF+GI GMS A L G++V GSD + G
Sbjct: 1 EIHFIGIDSRGMSPGALFLALKGYRVDGSDFA-----ESAIALGA--------------- 40
Query: 69 ILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMR 105
+ V+S+AI +D + IP+I R E LA L
Sbjct: 41 VAVVSSAIPRDPNPEV----PGIPVIDRREALAELAA 73
>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 = 60.8 bits (148), Expect = 8e-10
Identities = 21/89 (23%), Positives = 41/89 (46%), Gaps = 4/89 (4%)
Query: 318 IKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICPRKIIAIHQP--HRYSRLSTLF 375
+ R +VG N V V DDY H+P + + L A++++ ++I + R + L
Sbjct: 1 VPGRLEVVGENNGVLVIDDYAHNPDALEAALQALKELFDGRLILVFGAGGDRDAEFHALL 60
Query: 376 DQFSSCFGDADIVLISPVYSAGEKEIPGF 404
++ AD+V+++ Y E+
Sbjct: 61 GALAAAL--ADVVILTGDYPRAEEPGAAI 87
>gnl|CDD|30633 COG0285, FolC, Folylpolyglutamate synthase [Coenzyme metabolism].
Length = 427
Score = 49.1 bits (117), Expect = 2e-06
Identities = 74/405 (18%), Positives = 135/405 (33%), Gaps = 104/405 (25%)
Query: 108 KSISVSGTHGKTTTTSLIAALLEQGKF--------------DPTVINGGII--------- 144
I V+GT+GK +T + + ++L + + + ING I
Sbjct: 45 PVIHVAGTNGKGSTCAFLESILREAGYKVGVYTSPHLLSFNERIRINGEPISDEELAAAF 104
Query: 145 -----------NSYGTNARIGTS-----------EWIVVEAD---ESDGTFIRLPSDIVV 179
T + T+ + ++E D T + + D+ V
Sbjct: 105 ERVEEAAGSLDLISLTYFEVLTAMAFLYFAEAKVDVAILEVGLGGRLDATNV-IEPDVSV 163
Query: 180 VTNIDPEHLDYYGDF-NAIRAAFYK---FIDNIPFYGFAVVCM-DHPEVRSLIARIQNRK 234
+T+I +H + GD +I A K P AV+ PE ++IA
Sbjct: 164 ITSIGLDHTAFLGDTLESI--AREKAGIIKAGKP----AVIGEQQPPEALNVIAERAEEL 217
Query: 235 IITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHN-ISNACA 293
+ + + F + + DL LPL+G H+ I NA
Sbjct: 218 GAPLFVLGP------DFQVLEEGNGFS-------FQGGGGLLDLPLPLLGGHHQIENAAL 264
Query: 294 SIAVAYKLG--LSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAV 351
+IA LG +S E ++KGLA+ R + + + D H+P ++ +
Sbjct: 265 AIAALEALGKEISEEAIRKGLANVD-WPGRLERLSE--NPLILLDGAHNPHAARALAETL 321
Query: 352 RQICPRKIIAIHQPHRYSRLSTLFDQFSSCFGDADIV--------LISPVYSAGEKEIPG 403
+ + RL+ +F D DI ++ +Y+
Sbjct: 322 KTLFN----------DRPRLTLVF----GMLKDKDIAGMLAALLPIVDEIYTTPLPWPRA 367
Query: 404 FSSPELVKNIKLQGHPQAYYMDSFDHLVSKILAIAEPGDFIIFFG 448
+ EL+ +G +D + L A+ D ++ G
Sbjct: 368 LDAEELLAFAGERG---GVELDDVAEALELALEKADEDDLVLVTG 409
>gnl|CDD|107302 cd06307, PBP1_uncharacterized_sugar_binding, Periplasmic
sugar-binding domain of uncharacterized transport
systems. Periplasmic sugar-binding domain of
uncharacterized transport systems that share homology
with a family of pentose/hexose sugar-binding proteins
of the type I periplasmic binding protein (PBP1)
superfamily. The members of this group are predicted to
be involved in the transport of sugar-containing
molecules across cellular and organellar membranes.
Length = 275
Score = 31.0 bits (71), Expect = 0.70
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 212 GFAVVCMDHPEVRSLIARIQNRKI 235
G A+V DHP+VR+ +AR+ +
Sbjct: 61 GVALVAPDHPQVRAAVARLAAAGV 84
>gnl|CDD|145605 pfam02558, ApbA, Ketopantoate reductase PanE/ApbA. This is a
family of 2-dehydropantoate 2-reductases also known as
ketopantoate reductases, EC:1.1.1.169. The reaction
catalysed by this enzyme is: (R)-pantoate + NADP(+) <=>
2-dehydropantoate + NADPH. AbpA catalyses the NADPH
reduction of ketopantoic acid to pantoic acid in the
alternative pyrimidine biosynthetic (APB) pathway. ApbA
and PanE are allelic. ApbA, the ketopantoate reductase
enzyme is required for the synthesis of thiamine via
the APB biosynthetic pathway.
Length = 150
Score = 31.0 bits (71), Expect = 0.73
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 10 IHFVGIGGIGMSGIAEVLHNTGHQVQGSDVIL-GPNVQRLHKQGIKVSIGH 59
I +G G +G S L GH V +I G +++ + + G++++
Sbjct: 1 IAILGAGAVG-SLYGARLARAGHDVT---LIARGRHLEAIRENGLRITSPG 47
>gnl|CDD|34152 COG4474, COG4474, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 180
Score = 29.9 bits (67), Expect = 1.5
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 5/65 (7%)
Query: 401 IPGFSSPELVKNIKLQGHPQAYYMDSFDHLVSKILAIAEPG-DFIIFFGAGNITQWAASL 459
+ G+ S EL I P+ Y+ + K+ A+ E G ++++ G WAA +
Sbjct: 6 VTGYKSFEL--GIFKDKDPEVSYIKKA--IKKKLEALLEEGLEWVLITGQLGFELWAAEV 61
Query: 460 IGELE 464
+ EL+
Sbjct: 62 VIELK 66
>gnl|CDD|109493 pfam00437, GSPII_E, Type II/IV secretion system protein. This
family contains both type II and type IV pathway
secretion proteins from bacteria. VirB11 ATPase is a
subunit of the Agrobacterium tumefaciens transfer DNA
(T-DNA) transfer system, a type IV secretion pathway
required for delivery of T-DNA and effector proteins to
plant cells during infection.
Length = 283
Score = 29.5 bits (67), Expect = 2.0
Identities = 31/114 (27%), Positives = 40/114 (35%), Gaps = 24/114 (21%)
Query: 98 EMLAGLMRCRKSISVSGTHGKTTTTSLIAALLEQGKF--------DPTVINGGIINSYGT 149
E L ++ R +I VSG G TT L A L E DP I N
Sbjct: 130 EFLRQAVQARGNILVSGGTGSGKTTLLYALLNEINTDDERIVTIEDPVEIQLEGPNQVQL 189
Query: 150 NARIGTSEWIVVEADESDG--TFIRLPSDIVVVTNI-DPEHLDYYGDFNAIRAA 200
N R+ +D +R D ++V I D E D +RAA
Sbjct: 190 NTRLA-------GVTFADLLRAALRQRPDRIMVGEIRDGETADI------LRAA 230
>gnl|CDD|146477 pfam03864, Phage_cap_E, Phage major capsid protein E. Major capsid
protein E is involved with the stabilisation of the
condensed form of the DNA molecule in phage heads.
Length = 345
Score = 29.3 bits (66), Expect = 2.6
Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 12/81 (14%)
Query: 130 EQGKFDPTVINGGIINSY----GTNARIGTSEWIVVEADESDGTFIR-LPSDIVVVTNID 184
+ + ++ G + S+ G A + + DGT LP D VV+ N
Sbjct: 227 SNSQLETARLDLGAVVSFKGYLGDLALYVYNGQYT----DDDGTEKPYLPDDTVVLGNTG 282
Query: 185 PEHLDYYG---DFNAIRAAFY 202
L YG D A+ +
Sbjct: 283 ARGLRAYGAIMDQAALTEGYV 303
>gnl|CDD|36278 KOG1060, KOG1060, KOG1060, Vesicle coat complex AP-3, beta subunit
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 968
Score = 28.8 bits (64), Expect = 3.1
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 339 HHPIEISSVLAAVRQICPRKIIAIHQPHRYSRLSTLFDQ 377
P+ + S + A ++CP ++ IH+ Y +L L
Sbjct: 192 RSPLVVGSAVMAFEEVCPERLDLIHK--NYRKLCRLLPD 228
>gnl|CDD|73290 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of
proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion..
Length = 99
Score = 28.5 bits (63), Expect = 3.8
Identities = 19/99 (19%), Positives = 34/99 (34%), Gaps = 11/99 (11%)
Query: 117 GKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSD 176
GKTT + +AA L + +I+ ++ I T + + +
Sbjct: 11 GKTTLAANLAAALAKRGKRVLLIDDYVL--------IDTPPGLGLLVL-LCLLALLAADL 61
Query: 177 IVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAV 215
+++VT PE L G I+ + G V
Sbjct: 62 VIIVT--TPEALAVLGARRLTEVVLELAIEGLRPVGVVV 98
>gnl|CDD|146445 pfam03807, F420_oxidored, NADP oxidoreductase coenzyme
F420-dependent.
Length = 93
Score = 28.7 bits (65), Expect = 3.9
Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 10 IHFVGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHKQ----GIKVSIGHKVENID 65
I +G G +G +A L GH+V + N ++ G+ + E +
Sbjct: 2 IGIIGAGNMG-EALARGLAAAGHEVI---IANSRNPEKAAALAEELGVGATAVSNEEAAE 57
Query: 66 NAEILVLS 73
A++++L+
Sbjct: 58 EADVVILA 65
>gnl|CDD|163626 cd07383, MPP_Dcr2, Saccharomyces cerevisiae DCR2 phosphatase and
related proteins, metallophosphatase domain. DCR2
phosphatase (Dosage-dependent Cell Cycle Regulator 2)
functions together with DCR1 (Gid8) in a common pathway
to accelerate initiation of DNA replication in
Saccharomyces cerevisiae. Genetic analysis suggests that
DCR1 functions upstream of DCR2. DCR2 interacts with
and dephosphorylates Sic1, an inhibitor of mitotic
cyclin/cyclin-dependent kinase complexes, which may
serve to trigger the initiation of cell division. DCR2
belongs to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 199
Score = 28.4 bits (64), Expect = 4.8
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 121 TTSLIAALLEQGKFDPTVINGGIINSYGTN 150
T + I +L+ K D V+ G +I TN
Sbjct: 29 TVAFIERVLDAEKPDLVVLTGDLITGENTN 58
>gnl|CDD|37515 KOG2304, KOG2304, KOG2304, 3-hydroxyacyl-CoA dehydrogenase [Lipid
transport and metabolism].
Length = 298
Score = 28.4 bits (63), Expect = 4.9
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 8/57 (14%)
Query: 7 MGPIHFVGIGGIGM--SGIAEVLHNTGHQVQGSDVILGPNVQRLHK--QGIKVSIGH 59
M I V I G G SGIA+V +G V ++ N L + + I S+
Sbjct: 8 MAEIKNVAIVGAGQMGSGIAQVAATSGLNV----WLVDANEDALSRATKAISSSLKR 60
>gnl|CDD|143852 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 28.3 bits (64), Expect = 5.1
Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 12/78 (15%)
Query: 13 VGIGGIGMSGIAEVLHNTGHQV----------QGSDVILGPNVQ-RLHKQGIKVSIGHKV 61
VG G IG+ A L G +V +G D + +Q +L K GI+V + V
Sbjct: 5 VGGGYIGLE-FASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLEKNGIEVLLNTTV 63
Query: 62 ENIDNAEILVLSTAIDKD 79
E I+ VL D
Sbjct: 64 EEIEGNGDGVLVVLETGD 81
>gnl|CDD|173825 cd00691, ascorbate_peroxidase, Ascorbate peroxidases and cytochrome
C peroxidases. Ascorbate peroxidases are a subgroup of
heme-dependent peroxidases of the plant superfamily that
share a heme prosthetic group and catalyze a multistep
oxidative reaction involving hydrogen peroxide as the
electron acceptor. Along with related
catalase-peroxidases, ascorbate peroxidases belong to
class I of the plant superfamily. Ascorbate peroxidases
are found in the chloroplasts and/or cytosol of algae
and plants, where they have been shown to control the
concentration of lethal hydrogen peroxide molecules. The
yeast cytochrome c peroxidase is a divergent member of
the family; it forms a complex with cytochrome c to
catalyze the reduction of hydrogen peroxide to water.
Length = 253
Score = 27.9 bits (63), Expect = 7.0
Identities = 24/99 (24%), Positives = 34/99 (34%), Gaps = 28/99 (28%)
Query: 105 RCRKSISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEAD 164
RC K SG G T L KFD NSY + +W
Sbjct: 166 RCHKE--RSGYDGPWTKNPL--------KFD---------NSYFKE--LLEEDW-----K 199
Query: 165 ESDGTFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYK 203
+ LP+D ++ DP+ Y + + AF+K
Sbjct: 200 LPTPGLLMLPTDKALLE--DPKFRPYVELYAKDQDAFFK 236
>gnl|CDD|37353 KOG2142, KOG2142, KOG2142, Molybdenum cofactor sulfurase [Coenzyme
transport and metabolism].
Length = 728
Score = 27.7 bits (61), Expect = 7.2
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 189 DYYGDFNAIRAAFYKFIDNIPFY 211
DY A+ A + PFY
Sbjct: 83 DYEVSLPALTEALKLVAEAFPFY 105
>gnl|CDD|36140 KOG0922, KOG0922, KOG0922, DEAH-box RNA helicase [RNA processing
and modification].
Length = 674
Score = 27.5 bits (61), Expect = 7.3
Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 14/99 (14%)
Query: 376 DQFSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHPQAYYMDSFDHLVSKIL 435
++FS F +A I+ IPG + P V+ + L+ P A Y+D+ V +I
Sbjct: 208 EKFSEYFNNAPIL-----------TIPGRTFP--VEILYLK-EPTADYVDAALITVIQIH 253
Query: 436 AIAEPGDFIIFFGAGNITQWAASLIGELELVTPQNVCMM 474
PGD ++F + A L+ E P++ +
Sbjct: 254 LTEPPGDILVFLTGQEEIEAACELLRERAKSLPEDCPEL 292
>gnl|CDD|35584 KOG0363, KOG0363, KOG0363, Chaperonin complex component, TCP-1 beta
subunit (CCT2) [Posttranslational modification, protein
turnover, chaperones].
Length = 527
Score = 27.2 bits (60), Expect = 9.1
Identities = 12/31 (38%), Positives = 21/31 (67%)
Query: 59 HKVENIDNAEILVLSTAIDKDNVECIAARER 89
++ + I+NA+IL+ +T +D D V+ AR R
Sbjct: 222 NQPKRIENAKILIANTPMDTDKVKVFGARVR 252
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
0.322 0.139 0.412
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,893,254
Number of extensions: 325538
Number of successful extensions: 987
Number of sequences better than 10.0: 1
Number of HSP's gapped: 976
Number of HSP's successfully gapped: 36
Length of query: 474
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 377
Effective length of database: 4,167,664
Effective search space: 1571209328
Effective search space used: 1571209328
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 (21.9 bits)
S2: 59 (26.4 bits)