RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9632
(83 letters)
>gnl|CDD|223113 COG0035, Upp, Uracil phosphoribosyltransferase [Nucleotide
transport and metabolism].
Length = 210
Score = 66.1 bits (162), Expect = 4e-15
Identities = 21/44 (47%), Positives = 33/44 (75%)
Query: 10 GIHSIAYAFPNVKIVTSAVDPEINENFYVIPGIGNFGDRYFGTE 53
GI ++ A P+V+I T+A+D +NE Y++PG+G+ GDR FGT+
Sbjct: 167 GIKAVEKAHPDVEIYTAAIDEGLNEKGYIVPGLGDAGDRLFGTK 210
>gnl|CDD|130163 TIGR01091, upp, uracil phosphoribosyltransferase. A fairly deep
split in phylogenetic and UPGMA trees separates this
mostly prokaryotic set of uracil
phosphoribosyltransferases from a mostly eukaryotic set
that includes uracil phosphoribosyltransferase, uridine
kinases, and other, uncharacterized proteins [Purines,
pyrimidines, nucleosides, and nucleotides, Salvage of
nucleosides and nucleotides].
Length = 207
Score = 58.0 bits (141), Expect = 4e-12
Identities = 21/44 (47%), Positives = 34/44 (77%)
Query: 10 GIHSIAYAFPNVKIVTSAVDPEINENFYVIPGIGNFGDRYFGTE 53
GI ++ A P+V I T+A+D ++N+N Y++PG+G+ GDR FGT+
Sbjct: 164 GIEAVEKAHPDVDIYTAAIDEKLNDNGYIVPGLGDAGDRAFGTK 207
>gnl|CDD|234653 PRK00129, upp, uracil phosphoribosyltransferase; Reviewed.
Length = 209
Score = 54.7 bits (133), Expect = 8e-11
Identities = 21/43 (48%), Positives = 34/43 (79%)
Query: 10 GIHSIAYAFPNVKIVTSAVDPEINENFYVIPGIGNFGDRYFGT 52
GI ++ A P+V+I T+A+D ++NE+ Y++PG+G+ GDR FGT
Sbjct: 166 GIKALEEAHPDVEIYTAAIDEKLNEHGYIVPGLGDAGDRLFGT 208
>gnl|CDD|215297 PLN02541, PLN02541, uracil phosphoribosyltransferase.
Length = 244
Score = 49.0 bits (117), Expect = 1e-08
Identities = 17/36 (47%), Positives = 25/36 (69%)
Query: 18 FPNVKIVTSAVDPEINENFYVIPGIGNFGDRYFGTE 53
FP + + +D E+NE Y++PG+G+ GDR FGTE
Sbjct: 209 FPGLHVYAGIIDEEVNEKGYIVPGLGDAGDRSFGTE 244
>gnl|CDD|223990 COG1062, AdhC, Zn-dependent alcohol dehydrogenases, class III
[Energy production and conversion].
Length = 366
Score = 29.9 bits (68), Expect = 0.093
Identities = 14/39 (35%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 38 VIPGIGNFGDRYFGTEPTITVTGGSIKATAGGSCLPRVE 76
VI G+ G T P VTG K +A G PR +
Sbjct: 282 VIIGVAGAGQE-ISTRPFQLVTGRVWKGSAFGGARPRSD 319
>gnl|CDD|233344 TIGR01290, nifB, nitrogenase cofactor biosynthesis protein NifB.
This model describes NifB, a protein required for the
biosynthesis of the iron-molybdenum (or iron-vanadium)
cofactor used by the nitrogen-fixing enzyme nitrogenase.
NifB belongs to the radical SAM family, and the FeMo
cluster biosynthesis process requires
S-adenosylmethionine. Archaeal homologs lack the most
C-terminal region and score between the trusted and
noise cutoffs of this model [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other, Central
intermediary metabolism, Nitrogen fixation].
Length = 442
Score = 26.7 bits (59), Expect = 1.4
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 21 VKIVTSAVDPEINENFYVIPGIGNFGDRYFGTE 53
V I +A+DP + E Y P + G+RY G E
Sbjct: 137 VTITINAIDPAVGEKIY--PWVWYEGERYTGRE 167
>gnl|CDD|181072 PRK07661, PRK07661, acetyl-CoA acetyltransferase; Provisional.
Length = 391
Score = 26.3 bits (58), Expect = 1.7
Identities = 12/21 (57%), Positives = 13/21 (61%), Gaps = 5/21 (23%)
Query: 2 TTPAITI-----SGIHSIAYA 17
T PAITI SG+ SIAY
Sbjct: 80 TVPAITINRYCSSGLQSIAYG 100
>gnl|CDD|227946 COG5659, COG5659, FOG: Transposase [DNA replication, recombination,
and repair].
Length = 385
Score = 26.3 bits (58), Expect = 2.1
Identities = 14/70 (20%), Positives = 20/70 (28%), Gaps = 13/70 (18%)
Query: 14 IAYAFPNVKIVTSAVDPEINENFYVIPGIGNFGDRYFGTEPTITVTGGSIKATAGGSCLP 73
IA FP ++ A E + NF TE + G G
Sbjct: 179 IAAGFPISVVLADAGYGESDTNFRENL-----------TELGLLYAVGIDSHF--GVWSG 225
Query: 74 RVETKEASPV 83
+ A+P
Sbjct: 226 KTSPLPANPW 235
>gnl|CDD|220279 pfam09527, ATPase_gene1, Putative F0F1-ATPase subunit
(ATPase_gene1). This model represents a protein found
encoded in F1F0-ATPase operons in several genomes,
including Methanosarcina barkeri (archaeal) and
Chlorobium tepidum (bacterial). It is a small protein
(about 100 amino acids) with long hydrophobic stretches
and is presumed to be a subunit of the enzyme.
Length = 55
Score = 24.7 bits (55), Expect = 2.4
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 41 GIGNFGDRYFGTEPTITVTG 60
+G + D++FGT P + G
Sbjct: 19 FLGYWLDKWFGTSPWFLLIG 38
>gnl|CDD|232848 TIGR00157, TIGR00157, ribosome small subunit-dependent GTPase A.
Members of this protein were designated YjeQ and are
now designated RsgA (ribosome small subunit-dependent
GTPase A). The strongest motif in the alignment of
these proteins is GXSGVGKS[ST], a classic P-loop for
nucleotide binding. This protein has been shown to
cleave GTP and remain bound to GDP. A role as a
regulator of translation has been suggested. The
Aquifex aeolicus ortholog is split into consecutive
open reading frames. Consequently, this model was build
in fragment mode (-f option) [Protein synthesis,
Translation factors].
Length = 245
Score = 25.5 bits (56), Expect = 3.4
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 20 NVKIVTSAVDPEINENF 36
+ IV+SAV PE++ N
Sbjct: 39 QIVIVSSAVLPELSLNQ 55
>gnl|CDD|163567 TIGR03855, NAD_NadX, aspartate dehydrogenase. Members of this
protein family are L-aspartate dehydrogenase, as shown
for the NADP-dependent enzyme TM_1643 of Thermotoga
maritima. Members lack homology to NadB, the aspartate
oxidase (EC 1.4.3.16) of most mesophilic bacteria
(described by TIGR00551), which this enzyme replaces in
the generation of oxaloacetate from aspartate for the
NAD biosynthetic pathway. All members of the seed
alignment are found adjacent to other genes of NAD
biosynthesis, although other uses of L-aspartate
dehydrogenase may occur.
Length = 229
Score = 25.1 bits (55), Expect = 5.3
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 6 ITISGIHSIAYAFP-NVKIVTSAVDPEINENFYVIPGIGNFGDRYFGTE 53
I ++ S+A F V+IV DPE + N + I +FG+ E
Sbjct: 153 INVAATLSLAAGFDAKVEIV---ADPEADRNIHEIFVESDFGEMEIRVE 198
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 25.0 bits (55), Expect = 5.6
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 47 DRYFGTEPTITVTGGS 62
DR G E ++T+ G S
Sbjct: 485 DRTTGREQSVTIQGAS 500
>gnl|CDD|224626 COG1712, COG1712, Predicted dinucleotide-utilizing enzyme [General
function prediction only].
Length = 255
Score = 24.7 bits (54), Expect = 7.2
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 6 ITISGIHSIAYAFPNVKIVTSAVDPEINENFYVIPGIGNFGDRYFGTE 53
I ++ S+A F VK+ A DPE++ N + + G FG E
Sbjct: 177 INVAATLSLAGGFERVKVRLVA-DPEVDRNIHEVEVRGAFGTFEIKIE 223
>gnl|CDD|153219 cd01748, GATase1_IGP_Synthase, Type 1 glutamine amidotransferase
(GATase1) domain found in imidazole glycerol phosphate
synthase (IGPS). Type 1 glutamine amidotransferase
(GATase1) domain found in imidazole glycerol phosphate
synthase (IGPS). IGPS incorporates ammonia derived from
glutamine into
N1-[(5'-phosphoribulosyl)-formimino]-5-aminoimidazole-
4-carboxamide ribonucleotide (PRFAR) to form
5'-(5-aminoimidazole-4-carboxamide) ribonucleotide
(AICAR) and imidazole glycerol phosphate (IGP). The
glutamine amidotransferase domain generates the ammonia
nucleophile which is channeled from the glutaminase
active site to the PRFAR active site. IGPS belong to
the triad family of amidotransferases having a
conserved Cys-His-Glu catalytic triad in the
glutaminase active site.
Length = 198
Score = 24.0 bits (53), Expect = 9.4
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 11 IHSIAYAF----PNVKIVTSAVDPEINENF--YVIPGIGNFGD 47
+ S+A A V I + DPE + ++PG+G FGD
Sbjct: 11 LRSVANALERLGAEVIITS---DPEEILSADKLILPGVGAFGD 50
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
0.316 0.135 0.396
Gapped
Lambda K H
0.267 0.0874 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,213,149
Number of extensions: 335692
Number of successful extensions: 369
Number of sequences better than 10.0: 1
Number of HSP's gapped: 369
Number of HSP's successfully gapped: 23
Length of query: 83
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 31
Effective length of database: 8,631,194
Effective search space: 267567014
Effective search space used: 267567014
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: 41 (21.5 bits)
S2: 53 (23.9 bits)