RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9641
(145 letters)
>gnl|CDD|215895 pfam00393, 6PGD, 6-phosphogluconate dehydrogenase, C-terminal
domain. This family represents the C-terminal all-alpha
domain of 6-phosphogluconate dehydrogenase. The domain
contains two structural repeats of 5 helices each.
Length = 290
Score = 180 bits (460), Expect = 9e-58
Identities = 65/100 (65%), Positives = 76/100 (76%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYG 60
++ VFE+WNKGELDS+LIEIT DIL+ KD DG PLV+KI D AGQKGTGKWT SAL+ G
Sbjct: 37 IADVFEEWNKGELDSYLIEITADILRKKDEDGKPLVDKILDKAGQKGTGKWTVQSALELG 96
Query: 61 VPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKGKD 100
VPV LI E+VF+R LSSL +ER AS+VL GP D
Sbjct: 97 VPVPLITEAVFARYLSSLKEERVAASKVLSGPKAAKDKGD 136
>gnl|CDD|236453 PRK09287, PRK09287, 6-phosphogluconate dehydrogenase; Validated.
Length = 459
Score = 174 bits (443), Expect = 2e-53
Identities = 62/99 (62%), Positives = 77/99 (77%), Gaps = 1/99 (1%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKD-TDGAPLVEKIKDYAGQKGTGKWTAISALDY 59
++ VF +WNKGEL+S+LIEIT DIL+ KD G PLV+ I D AGQKGTGKWT+ SALD
Sbjct: 203 IADVFAEWNKGELNSYLIEITADILRQKDEETGKPLVDVILDKAGQKGTGKWTSQSALDL 262
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKG 98
GVP+TLI E+VF+R LSSL D+R AS+VL GP ++G
Sbjct: 263 GVPLTLITEAVFARYLSSLKDQRVAASKVLSGPAAKFEG 301
>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase (decarboxylating).
This model does not specify whether the cofactor is
NADP only (EC 1.1.1.44), NAD only, or both. The model
does not assign an EC number for that reason [Energy
metabolism, Pentose phosphate pathway].
Length = 467
Score = 166 bits (422), Expect = 3e-50
Identities = 70/104 (67%), Positives = 78/104 (75%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYG 60
++ VF +WN GELDS+LIEIT DILK KD DG PLV+KI D AGQKGTGKWTAISALD G
Sbjct: 211 IAEVFTEWNNGELDSYLIEITADILKKKDEDGKPLVDKILDTAGQKGTGKWTAISALDLG 270
Query: 61 VPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKGKDTTYF 104
VPVTLI ESVF+R LSSL +ER AS+VL GP D F
Sbjct: 271 VPVTLITESVFARYLSSLKEERVAASKVLSGPLAPEPAVDKEEF 314
>gnl|CDD|223439 COG0362, Gnd, 6-phosphogluconate dehydrogenase [Carbohydrate
transport and metabolism].
Length = 473
Score = 165 bits (419), Expect = 7e-50
Identities = 66/93 (70%), Positives = 77/93 (82%), Gaps = 1/93 (1%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTD-GAPLVEKIKDYAGQKGTGKWTAISALDY 59
++ VFE+WNKGELDS+LIEIT DIL+ KD + G PLV+KI D AGQKGTGKWT ISALD
Sbjct: 215 IAEVFEEWNKGELDSYLIEITADILRKKDEEGGKPLVDKILDKAGQKGTGKWTVISALDL 274
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGP 92
GVP+TLI E+VF+R LSSL DER AS+VL GP
Sbjct: 275 GVPLTLITEAVFARYLSSLKDERVAASKVLAGP 307
>gnl|CDD|240287 PTZ00142, PTZ00142, 6-phosphogluconate dehydrogenase; Provisional.
Length = 470
Score = 137 bits (347), Expect = 2e-39
Identities = 55/107 (51%), Positives = 68/107 (63%), Gaps = 3/107 (2%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDIL-KFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDY 59
+S VF WN+G L+S+LIEIT IL K D LV+KI D AG KGTGKWT AL+
Sbjct: 214 LSEVFNKWNEGILNSYLIEITAKILAKKDDLGEEHLVDKILDIAGSKGTGKWTVQEALER 273
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYK--GKDTTYF 104
G+PV + SV +R +S+L +ER KAS L GPNP K +D YF
Sbjct: 274 GIPVPTMAASVDARNISALKEERTKASSHLAGPNPANKTETEDKKYF 320
>gnl|CDD|215200 PLN02350, PLN02350, phosphogluconate dehydrogenase
(decarboxylating).
Length = 493
Score = 108 bits (272), Expect = 1e-28
Identities = 44/93 (47%), Positives = 56/93 (60%), Gaps = 1/93 (1%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKD-TDGAPLVEKIKDYAGQKGTGKWTAISALDY 59
++ VF +WNKGEL+SFLIEIT DI KD LV+KI D G KGTGKWT A +
Sbjct: 220 LAEVFAEWNKGELESFLIEITADIFSVKDDKGDGYLVDKILDKTGMKGTGKWTVQQAAEL 279
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGP 92
V I S+ +R LS L +ER A++V +
Sbjct: 280 SVAAPTIAASLDARYLSGLKEERVAAAKVFKEA 312
>gnl|CDD|223954 COG1023, Gnd, Predicted 6-phosphogluconate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 300
Score = 54.3 bits (131), Expect = 2e-09
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 6/74 (8%)
Query: 1 MSAVFEDWNKGE-LDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDY 59
+ AV E WN G + S+L+++T + K KD D +++I G G+WT ALD
Sbjct: 202 LEAVAEVWNHGSVIRSWLLDLTAEAFK-KDPD----LDQISGRVSDSGEGRWTVEEALDL 256
Query: 60 GVPVTLIGESVFSR 73
GVP +I ++ R
Sbjct: 257 GVPAPVIALALMMR 270
>gnl|CDD|236582 PRK09599, PRK09599, 6-phosphogluconate dehydrogenase-like protein;
Reviewed.
Length = 301
Score = 52.4 bits (127), Expect = 8e-09
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 11/85 (12%)
Query: 3 AVFEDWNKGE-LDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYGV 61
AV E W +G + S+L+++T D L +D P +++I Y G G+WT A+D V
Sbjct: 205 AVAEVWRRGSVIRSWLLDLTADALA-ED----PKLDEISGYVEDSGEGRWTVEEAIDLAV 259
Query: 62 PVTLIGESVFSRCLSSLFDERQKAS 86
P +I ++F R F RQ+ S
Sbjct: 260 PAPVIAAALFMR-----FRSRQEDS 279
>gnl|CDD|237116 PRK12490, PRK12490, 6-phosphogluconate dehydrogenase-like protein;
Reviewed.
Length = 299
Score = 47.8 bits (114), Expect = 3e-07
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 6/72 (8%)
Query: 3 AVFEDWNKGE-LDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYGV 61
V W G + S+L+++T L D P + IK Y G G+WT A++ V
Sbjct: 204 DVARLWRNGSVIRSWLLDLTVKAL---AED--PKLAGIKGYVNDSGEGRWTVEEAIELAV 258
Query: 62 PVTLIGESVFSR 73
+I S+F R
Sbjct: 259 AAPVIAASLFMR 270
>gnl|CDD|233163 TIGR00872, gnd_rel, 6-phosphogluconate dehydrogenase
(decarboxylating). This family resembles a larger
family (gnd) of bacterial and eukaryotic
6-phosphogluconate dehydrogenases but differs from it by
a deep split in a UPGMA similarity clustering tree and
the lack of a central region of about 140 residues.
Among complete genomes, it is found is found in Bacillus
subtilis and Mycobacterium tuberculosis, both of which
also contain gnd, and in Aquifex aeolicus. The protein
from Methylobacillus flagellatus KT has been
characterized as a decarboxylating 6-phosphogluconate
dehydrogenase as part of an unusual formaldehyde
oxidation cycle. In some sequenced organisms members of
this family are the sole 6-phosphogluconate
dehydrogenase present and are probably active in the
pentose phosphate cycle [Energy metabolism, Pentose
phosphate pathway].
Length = 298
Score = 44.8 bits (106), Expect = 3e-06
Identities = 21/71 (29%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 4 VFEDWNKGE-LDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYGVP 62
V W +G + S+L+++T + + D + + G G+WT I+A+D GVP
Sbjct: 204 VARVWRRGSVIRSWLLDLTAIAFR-ESPD----LAEFSGRVSDSGEGRWTVIAAIDLGVP 258
Query: 63 VTLIGESVFSR 73
+I S+ SR
Sbjct: 259 APVIATSLQSR 269
>gnl|CDD|219723 pfam08126, Propeptide_C25, Propeptide_C25. This is found at the N
terminal end of some of the members of the C25 peptidase
family (PF01364). Little is known about the function of
this motif.
Length = 202
Score = 29.5 bits (66), Expect = 0.47
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 13/93 (13%)
Query: 57 LDYGVPVTLIGESVFSRCLSSL----FDERQKASQVLQGPNPTYKGKDTTYFNFKDKGNS 112
D V + E F++ + F + + V Q P+ G N G
Sbjct: 7 RDPPVRLLTSTEQSFTKVQFRMDNLEFTKVETKKGVFQ--VPSIPGG----VNT---GEK 57
Query: 113 GSPIQPSLEWLVALREKKTPLEKMKIFASVPIE 145
GSP P L +A+ E T + K+K+ +S IE
Sbjct: 58 GSPELPILSKSIAVPEGATRVVKVKVVSSKFIE 90
>gnl|CDD|235547 PRK05654, PRK05654, acetyl-CoA carboxylase subunit beta; Validated.
Length = 292
Score = 28.6 bits (65), Expect = 0.94
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 9/57 (15%)
Query: 12 ELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAI---SALDYGVPVTL 65
ELD+ L KD LKF+D+ +++K QK TG A+ G+PV L
Sbjct: 75 ELDAELE--PKDPLKFRDSKKYK--DRLKAA--QKKTGLKDAVVTGKGTIEGMPVVL 125
>gnl|CDD|178608 PLN03046, PLN03046, D-glycerate 3-kinase; Provisional.
Length = 460
Score = 29.1 bits (65), Expect = 0.96
Identities = 38/121 (31%), Positives = 54/121 (44%), Gaps = 13/121 (10%)
Query: 19 EITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYGVPVTLIGESVFSRCLSSL 78
+I + KFKD D P + + ++ +G GK T + ALDY VT + S L
Sbjct: 196 QIAEHRSKFKDGDDIPPL--VIGFSAPQGCGKTTLVFALDYLFRVTGRKSATLSIDDFYL 253
Query: 79 FDERQKASQVLQGPNPTYKGKDTTYFNFKDKGNSGS-PIQPSLEWLVALREKKTPLEKMK 137
E Q L+ NP G +GN+GS +Q S+E L AL + KMK
Sbjct: 254 TAEGQAE---LRERNP---GNALLEL----RGNAGSHDLQFSVETLEALSKLTKEGIKMK 303
Query: 138 I 138
+
Sbjct: 304 V 304
>gnl|CDD|188057 TIGR00511, ribulose_e2b2, ribose-1,5-bisphosphate isomerase, e2b2
family. The delineation of this family was based
originally, in part, on a discussion and
neighbor-joining phylogenetic study by Kyrpides and
Woese of archaeal and other proteins homologous to the
alpha, beta, and delta subunits of eukaryotic initiation
factor 2B (eIF-2B), a five-subunit molecule that
catalyzes GTP recycling for eIF-2. Recently, Sato, et
al. assigned the function ribulose-1,5 bisphosphate
isomerase [Energy metabolism, Other].
Length = 301
Score = 27.4 bits (61), Expect = 2.6
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 49 GKWTAISALDYGVPVTLIGESVFSRCL 75
G TA DYG+PVTLI +S +
Sbjct: 155 GHITAKELRDYGIPVTLIVDSAARYYM 181
>gnl|CDD|236282 PRK08535, PRK08535, translation initiation factor IF-2B subunit
delta; Provisional.
Length = 310
Score = 26.8 bits (60), Expect = 4.5
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 49 GKWTAISALDYGVPVTLIGES 69
G TA +YG+PVTLI +S
Sbjct: 160 GHITAKELAEYGIPVTLIVDS 180
>gnl|CDD|211835 TIGR03548, mutarot_permut, cyclically-permuted mutarotase family
protein. Members of this protein family show
essentially full-length homology, cyclically permuted,
to YjhT from Escherichia coli. YjhT was shown to act as
a mutarotase for sialic acid, and by this ability to be
able to act as a virulence factor. Members of the YjhT
family (TIGR03547) and this cyclically-permuted family
have multiple repeats of the beta-propeller-forming
Kelch repeat.
Length = 323
Score = 26.7 bits (59), Expect = 5.7
Identities = 14/94 (14%), Positives = 29/94 (30%), Gaps = 16/94 (17%)
Query: 32 GAPLVEKIKDYAGQKGTGKWTAISA-LDYGVPVTLIGESVFS---------------RCL 75
G + Y TG W ++ L G P++L+G + +
Sbjct: 179 GGDNIAYTDGYKYSPKTGTWEKVADPLSDGEPISLLGAASIAINESLLLCIGGFNYDVFN 238
Query: 76 SSLFDERQKASQVLQGPNPTYKGKDTTYFNFKDK 109
++ + L+ Y ++ + DK
Sbjct: 239 DAVIRLATMKDESLKSYAAEYFLHPPDWYRWNDK 272
>gnl|CDD|239425 cd03309, CmuC_like, CmuC_like. Proteins similar to the putative
corrinoid methyltransferase CmuC. Its function has been
inferred from sequence similarity to the
methyltransferases CmuA and MtaA. Mutants of
Methylobacterium sp. disrupted in cmuC and purU appear
deficient in some step of chloromethane metabolism.
Length = 321
Score = 26.2 bits (58), Expect = 7.0
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 19 EITKDILKFKDTDGAPLVEKIKD 41
E+ DI K+KD P ++ D
Sbjct: 73 EVVDDITKWKDYVKPPDIQHPLD 95
>gnl|CDD|143426 cd07108, ALDH_MGR_2402, Magnetospirillum NAD(P)+-dependent aldehyde
dehydrogenase MSR-1-like. NAD(P)+-dependent aldehyde
dehydrogenase of Magnetospirillum gryphiswaldense MSR-1
(MGR_2402) , and other similar sequences, are present in
this CD.
Length = 457
Score = 26.2 bits (58), Expect = 7.4
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 6/39 (15%)
Query: 32 GAPLVE-----KIKDYAGQKGTGKWTAISALDYGVPVTL 65
GA LV+ K+ + G GK +A D +PV+L
Sbjct: 187 GAALVDHPDVDKVT-FTGSTEVGKIIYRAAADRLIPVSL 224
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.314 0.134 0.394
Gapped
Lambda K H
0.267 0.0661 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,399,325
Number of extensions: 637048
Number of successful extensions: 491
Number of sequences better than 10.0: 1
Number of HSP's gapped: 487
Number of HSP's successfully gapped: 26
Length of query: 145
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 57
Effective length of database: 7,034,450
Effective search space: 400963650
Effective search space used: 400963650
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (24.7 bits)