RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780279|ref|YP_003064692.1| dihydrodipicolinate reductase
[Candidatus Liberibacter asiaticus str. psy62]
(280 letters)
>gnl|CDD|30637 COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport
and metabolism].
Length = 266
Score = 290 bits (743), Expect = 3e-79
Identities = 119/269 (44%), Positives = 161/269 (59%), Gaps = 4/269 (1%)
Query: 4 SPMRISVLG-GGRMGQALIKEIHNNPSITLHSIIVRSGSPLIGQDVGNFVGISPMGIKFS 62
S ++++V G GRMG+ LI+ + P + L + R GS +G D G G+ +G+ +
Sbjct: 1 SMIKVAVAGASGRMGRTLIRAVLEAPDLELVAAFDRPGSLSLGSDAGELAGLGLLGVPVT 60
Query: 63 DNLAMAIQSVDGIIDFSSPALTLQSLNISAQHNIVHIIGTTGFSVKENEVISSFARNAPI 122
D+L + D +IDF++P TL++L + +H +IGTTGF+ ++ E + A P+
Sbjct: 61 DDLLLVKADADVLIDFTTPEATLENLEFALEHGKPLVIGTTGFTEEQLEKLREAAEKVPV 120
Query: 123 VKSSNMSLGINFLGFLVETAAEYLLPAKDWDFEILEMHHRRKLDSPSGTALLLGEAIANG 182
V + N SLG+N L L E AA+ L D+D EI+E HHR K D+PSGTAL L EAIA
Sbjct: 121 VIAPNFSLGVNLLFKLAEQAAKVL---DDYDIEIIEAHHRHKKDAPSGTALKLAEAIAEA 177
Query: 183 RKVNLTDHMVLNRHIQQCARTEGSIGIASLRAGSIVGEHSVVIAGEGESITLSHSAYDRR 242
R +L D V R AR EG IGI S+R G IVGEH V+ AGEGE I + H A R
Sbjct: 178 RGQDLKDEAVYGREGATGARKEGEIGIHSVRGGDIVGEHEVIFAGEGERIEIRHRATSRD 237
Query: 243 IFARGSLTAALWAKSQIPGLYSMRDVLGI 271
FARG+L AA W + PGLY M DVLG+
Sbjct: 238 SFARGALLAARWLVGKPPGLYDMEDVLGL 266
>gnl|CDD|147385 pfam05173, DapB_C, Dihydrodipicolinate reductase, C-terminus.
Dihydrodipicolinate reductase (DapB) reduces the
alpha,beta-unsaturated cyclic imine,
dihydro-dipicolinate. This reaction is the second
committed step in the biosynthesis of L-lysine and its
precursor meso-diaminopimelate, which are critical for
both protein and cell wall biosynthesis. The C-terminal
domain of DapB has been proposed to be the substrate-
binding domain.
Length = 137
Score = 170 bits (434), Expect = 4e-43
Identities = 69/140 (49%), Positives = 87/140 (62%), Gaps = 4/140 (2%)
Query: 131 GINFLGFLVETAAEYLLPAKDWDFEILEMHHRRKLDSPSGTALLLGEAIANGRKVNLTDH 190
G+N L L E AA+YL D+D EI+E+HHR+K D+PSGTAL L EAIA R L
Sbjct: 1 GVNLLMKLAEEAAKYL--GDDYDIEIIEIHHRQKKDAPSGTALKLAEAIAEARGEALEVV 58
Query: 191 MVLNRHIQQCARTEGSIGIASLRAGSIVGEHSVVIAGEGESITLSHSAYDRRIFARGSLT 250
R R+ IGI S+R G +VGEH V+ G+GE I ++H A+ R IFA G+L
Sbjct: 59 ADE-REGGTRGRSVNEIGIHSVRGGGVVGEHEVIFGGDGERIEITHDAHSREIFAPGALL 117
Query: 251 AALW-AKSQIPGLYSMRDVL 269
AA W A ++PGLY M DVL
Sbjct: 118 AAEWLAGKKLPGLYGMEDVL 137
>gnl|CDD|144632 pfam01113, DapB_N, Dihydrodipicolinate reductase, N-terminus.
Dihydrodipicolinate reductase (DapB) reduces the
alpha,beta-unsaturated cyclic imine,
dihydro-dipicolinate. This reaction is the second
committed step in the biosynthesis of L-lysine and its
precursor meso-diaminopimelate, which are critical for
both protein and cell wall biosynthesis. The N-terminal
domain of DapB binds the dinucleotide NADPH.
Length = 122
Score = 122 bits (308), Expect = 1e-28
Identities = 44/124 (35%), Positives = 73/124 (58%), Gaps = 3/124 (2%)
Query: 6 MRISVLG-GGRMGQALIKEIHNNPSITLHSIIVRSGSPLIGQDVGNFVGISPMGIKFSDN 64
++++V+G GRMG+ LIK I P L + + R GS L+G D G G P+G+ +D+
Sbjct: 1 IKVAVVGASGRMGRELIKAILEAPDFELVAAVDRPGSSLLGSDAGELAG--PLGVPVTDD 58
Query: 65 LAMAIQSVDGIIDFSSPALTLQSLNISAQHNIVHIIGTTGFSVKENEVISSFARNAPIVK 124
L + D +IDF++P TL++L ++ +H +IGTTGF+ ++ + A+ PIV
Sbjct: 59 LEEVLADADVLIDFTTPEATLENLELALKHGKPLVIGTTGFTEEQLAELKEAAKKIPIVI 118
Query: 125 SSNM 128
+ N
Sbjct: 119 APNF 122
>gnl|CDD|30693 COG0345, ProC, Pyrroline-5-carboxylate reductase [Amino acid
transport and metabolism].
Length = 266
Score = 35.6 bits (82), Expect = 0.014
Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 5 PMRISVLGGGRMGQALIKEIHNNPSITLHSIIVRSGSPLIGQDVGNFVGISPMGIKFSDN 64
M+I +G G MG+A++ + + ++ IIV + S + + G+ + +
Sbjct: 1 MMKIGFIGAGNMGEAILSGLLKSGALPPEEIIVTNRSEEKRAAL-----AAEYGVVTTTD 55
Query: 65 LAMAIQSVDGII 76
A++ D +
Sbjct: 56 NQEAVEEADVVF 67
>gnl|CDD|30589 COG0240, GpsA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 329
Score = 32.1 bits (73), Expect = 0.16
Identities = 27/126 (21%), Positives = 49/126 (38%), Gaps = 17/126 (13%)
Query: 5 PMRISVLGGGRMGQALIKEIHNNPSITLHSIIVRSGSPLIGQDVGN-------FVGIS-P 56
M+I+V+G G G AL K + N H + + I ++ GI P
Sbjct: 1 MMKIAVIGAGSWGTALAKVLARNG----HEVRLWGRDEEIVAEINETRENPKYLPGILLP 56
Query: 57 MGIKFSDNLAMAIQSVDGIIDFSSPA----LTLQSLNISAQHNIVHIIGTTGFSVKENEV 112
+K + +LA A+ D I+ + P+ L+ L + + + T G + +
Sbjct: 57 PNLKATTDLAEALDGADIIV-IAVPSQALREVLRQLKPLLLKDAIIVSATKGLEPETGRL 115
Query: 113 ISSFAR 118
+S
Sbjct: 116 LSEIIE 121
>gnl|CDD|30808 COG0460, ThrA, Homoserine dehydrogenase [Amino acid transport and
metabolism].
Length = 333
Score = 29.8 bits (67), Expect = 0.75
Identities = 12/82 (14%), Positives = 34/82 (41%), Gaps = 9/82 (10%)
Query: 5 PMRISVLGGGRMGQALIKEIHNNPS---------ITLHSIIVRSGSPLIGQDVGNFVGIS 55
+++ +LG G +G +++ + I + ++ R GS + D+ N +
Sbjct: 3 TVKVGLLGLGTVGSGVLEILAEKQEELRKRAGIEIRVVAVADRDGSLVRDLDLLNAEVWT 62
Query: 56 PMGIKFSDNLAMAIQSVDGIID 77
G + + + +D +++
Sbjct: 63 TDGALSLGDEVLLDEDIDVVVE 84
>gnl|CDD|133148 cd05481, retropepsin_like_LTR_1, Retropepsins_like_LTR;
pepsin-like aspartate protease from retrotransposons
with long terminal repeats. Retropepsin of
retrotransposons with long terminal repeats are
pepsin-like aspartate proteases. While fungal and
mammalian pepsins are bilobal proteins with
structurally related N and C-terminals, retropepsins
are half as long as their fungal and mammalian
counterparts. The monomers are structurally related to
one lobe of the pepsin molecule and retropepsins
function as homodimers. The active site aspartate
occurs within a motif (Asp-Thr/Ser-Gly), as it does in
pepsin. Retroviral aspartyl protease is synthesized as
part of the POL polyprotein that contains an aspartyl
protease, a reverse transcriptase, RNase H, and an
integrase. The POL polyprotein undergoes specific
enzymatic cleavage to yield the mature proteins. In
aspartate peptidases, Asp residues are ligands of an
activated water molecule in all examples where
catalytic residues have been identified. This group of
aspartate peptidases is classified by MEROPS as the
peptidase family A2 (retropepsin family, clan AA),
subfamily A2A.
Length = 93
Score = 29.5 bits (67), Expect = 0.98
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 2 HQSPMRISVLGGGR---MGQALIKEIHNNPSITLHSIIVRS-GSPLIG 45
SP+R++ GG G +K + NP L +V+ G PL+G
Sbjct: 41 RPSPVRLTAYGGSTIPVEGGVKLKCRYRNPKYNLTFQVVKEEGPPLLG 88
>gnl|CDD|37827 KOG2616, KOG2616, KOG2616, Pyridoxalphosphate-dependent
enzyme/predicted threonine synthase [Amino acid
transport and metabolism].
Length = 266
Score = 27.6 bits (61), Expect = 3.7
Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 62 SDNLAMAIQSVDGIIDFSSPALTLQSLNISAQHN-IVHIIGTTGFSVKENEVISSFARNA 120
D ++++ G ++F+ L ++ L I+ N I+H TG +V ++ +
Sbjct: 37 FDECQDPVKTIFGDVEFAKMGLPIRKLVIATNENDILHRFVKTGDYELSEKVAATLSPAM 96
Query: 121 PIVKSSNM 128
I+ SSN
Sbjct: 97 DILVSSNF 104
>gnl|CDD|37509 KOG2298, KOG2298, KOG2298, Glycyl-tRNA synthetase and related class
II tRNA synthetase [Translation, ribosomal structure and
biogenesis].
Length = 599
Score = 26.9 bits (59), Expect = 6.2
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 153 DFEILEMHHRRKLDSPSGTALLLGEAIANGRKVNLT 188
++ ++L S + LGEA+A G N T
Sbjct: 259 AEKLRLFPRDKQLSGQSAQKVALGEAVAKGTVNNET 294
>gnl|CDD|147655 pfam05602, CLPTM1, Cleft lip and palate transmembrane protein 1
(CLPTM1). This family consists of several eukaryotic
cleft lip and palate transmembrane protein 1 sequences.
Cleft lip with or without cleft palate is a common birth
defect that is genetically complex. The nonsyndromic
forms have been studied genetically using linkage and
candidate-gene association studies with only partial
success in defining the loci responsible for orofacial
clefting. CLPTM1 encodes a transmembrane protein and has
strong homology to two Caenorhabditis elegans genes,
suggesting that CLPTM1 may belong to a new gene family.
This family also contains the human cisplatin resistance
related protein CRR9p which is associated with
CDDP-induced apoptosis.
Length = 437
Score = 26.5 bits (59), Expect = 8.2
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 20 LIKEIHNNPSITLHSIIVRSGSPL 43
+ KE+ NN ++ H + SG L
Sbjct: 102 IPKEVQNNGTLYAHVYLGLSGYSL 125
>gnl|CDD|147078 pfam04735, Baculo_helicase, Baculovirus DNA helicase.
Length = 1173
Score = 26.4 bits (59), Expect = 9.0
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 137 FLVETAAEYLLPAKDWDFEILEMHHRRKL 165
+L E+ +Y+L A + +IL+++H K
Sbjct: 549 YLPESVFDYMLNAIKNELDILKIYHAAKF 577
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
0.319 0.135 0.382
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,230,360
Number of extensions: 168216
Number of successful extensions: 443
Number of sequences better than 10.0: 1
Number of HSP's gapped: 439
Number of HSP's successfully gapped: 22
Length of query: 280
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 187
Effective length of database: 4,254,100
Effective search space: 795516700
Effective search space used: 795516700
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 (21.7 bits)
S2: 57 (25.7 bits)