RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2128
(89 letters)
>gnl|CDD|240302 PTZ00169, PTZ00169, ADP/ATP transporter on adenylate translocase;
Provisional.
Length = 300
Score = 62.5 bits (152), Expect = 3e-13
Identities = 25/57 (43%), Positives = 34/57 (59%), Gaps = 5/57 (8%)
Query: 7 KKNFSNAVEFLKDFAAGGVSAAVAKTATAPIERVKLILQVQHINKQIPEDQ--RYKG 61
+N F DF GG+SAA++KTA APIERVK+++Q Q +I + RY G
Sbjct: 1 MDKKTN---FATDFLMGGISAAISKTAVAPIERVKMLIQTQDSIPEIKSGKVPRYSG 54
>gnl|CDD|215754 pfam00153, Mito_carr, Mitochondrial carrier protein.
Length = 96
Score = 47.2 bits (113), Expect = 1e-08
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 16 FLKDFAAGGVSAAVAKTATAPIERVKLILQVQHINKQIPEDQRYKG 61
FL AGG++ A+A T T P++ VK LQ ++YKG
Sbjct: 5 FLASLLAGGIAGAIAATVTYPLDVVKTRLQSS----AAGGSRKYKG 46
>gnl|CDD|182098 PRK09828, PRK09828, putative fimbrial outer membrane usher protein;
Provisional.
Length = 865
Score = 27.8 bits (62), Expect = 0.78
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 44 LQVQHINKQIPEDQRYKGQ----TLDSQIQGRQSSFE-KALLYKIQDF 86
V H N +IP+D+ Y+GQ T + + +SF A Y QD+
Sbjct: 424 FDVTHSNAEIPDDKTYQGQSYRLTWNKLFEATSTSFNVAAYRYSTQDY 471
>gnl|CDD|181644 PRK09088, PRK09088, acyl-CoA synthetase; Validated.
Length = 488
Score = 25.9 bits (57), Expect = 3.2
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 14 VEFLKDFAAGGVSAAVAKTATAPIERVKLIL 44
VE L F A + A T + P ERV LIL
Sbjct: 111 VEDLAAFIASADALEPADTPSIPPERVSLIL 141
>gnl|CDD|183548 PRK12478, PRK12478, enoyl-CoA hydratase; Provisional.
Length = 298
Score = 25.7 bits (56), Expect = 3.6
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 4 DGGKKNFSNAVEFLKDFAAGGVSAAVAK 31
DG +N +A+EF++ GV AAV +
Sbjct: 246 DGLMRNTPDALEFIRTAETQGVRAAVER 273
>gnl|CDD|223124 COG0046, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase,
synthetase domain [Nucleotide transport and metabolism].
Length = 743
Score = 25.7 bits (57), Expect = 3.8
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 11 SNAVEFLKDFAAGGVSAA 28
+ ++ ++D AGG+S A
Sbjct: 270 TGLIKGIQDLGAGGLSCA 287
>gnl|CDD|133447 cd01079, NAD_bind_m-THF_DH, NAD binding domain of
methylene-tetrahydrofolate dehydrogenase. The
NAD-binding domain of methylene-tetrahydrofolate
dehydrogenase (m-THF DH). M-THF is a versatile carrier
of activated one-carbon units. The major one-carbon
folate donors are N-5 methyltetrahydrofolate,
N5,N10-m-THF, and N10-formayltetrahydrofolate. The
oxidation of metabolic intermediate m-THF to m-THF
requires the enzyme m-THF DH. M-THF DH is a component
of an unusual monofunctional enzyme; in eukaryotes,
m-THF DH is typically found as part of a
multifunctional protein. NADP-dependent m-THF DHs in
mammals, birds and yeast are components of a
trifunctional enzyme with DH, cyclohydrolase, and
synthetase activities. Certain eukaryotic cells also
contain homodimeric bifunctional DH/cyclodrolase form.
In bacteria, monofunctional DH, as well as bifunctional
DH/cyclodrolase are found. In addition, yeast (S.
cerevisiae) also express an monofunctional DH. This
family contains only the monofunctional DHs from S.
cerevisiae and certain bacteria. M-THF DH, like other
amino acid DH-like NAD(P)-binding domains, is a member
of the Rossmann fold superfamily which includes
glutamate, leucine, and phenylalanine DHs, m-THF DH,
methylene-tetrahydromethanopterin DH, m-THF
DH/cyclohydrolase, Shikimate DH-like proteins, malate
oxidoreductases, and glutamyl tRNA reductase. Amino
acid DHs catalyze the deamination of amino acids to
keto acids with NAD(P)+ as a cofactor. The
NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der
Waals contacts.
Length = 197
Score = 25.5 bits (56), Expect = 4.1
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 36 PIERVKLILQVQHINKQIPEDQRYKGQTLD----SQIQGR 71
P+ VK++ + NK +P R G+T+ S++ GR
Sbjct: 37 PLAIVKILEFLGIYNKILPYGNRLYGKTITIINRSEVVGR 76
>gnl|CDD|216012 pfam00590, TP_methylase, Tetrapyrrole (Corrin/Porphyrin)
Methylases. This family uses S-AdoMet in the
methylation of diverse substrates. This family includes
a related group of bacterial proteins of unknown
function. This family includes the methylase Dipthine
synthase.
Length = 202
Score = 25.4 bits (56), Expect = 4.9
Identities = 7/35 (20%), Positives = 11/35 (31%)
Query: 6 GKKNFSNAVEFLKDFAAGGVSAAVAKTATAPIERV 40
+ E L + AV + P ER+
Sbjct: 159 DPHRLAEIAELLLELGDDDTPVAVVENLGTPDERI 193
>gnl|CDD|215361 PLN02673, PLN02673, quinolinate synthetase A.
Length = 724
Score = 25.4 bits (55), Expect = 5.5
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 31 KTATAPIERVKLILQVQHINKQIPEDQRYKG 61
K+ T P++RVK +L + +PE R +
Sbjct: 93 KSLTEPVDRVKRLLHYASLLPPLPESSRVES 123
>gnl|CDD|236523 PRK09452, potA, putrescine/spermidine ABC transporter ATPase
protein; Reviewed.
Length = 375
Score = 24.9 bits (55), Expect = 5.8
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 55 EDQRYKGQTLDSQIQ 69
++ YKG TLDS ++
Sbjct: 315 RERNYKGMTLDSVVE 329
>gnl|CDD|235680 PRK06034, PRK06034, hypothetical protein; Provisional.
Length = 279
Score = 25.1 bits (55), Expect = 6.0
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 10 FSNAVEFLKDFAAGGVSAAVAKT 32
F V ++ F+A V AVA++
Sbjct: 116 FGFTVPYVPHFSAQAVVEAVARS 138
>gnl|CDD|100034 cd02203, PurL_repeat1, PurL subunit of the formylglycinamide
ribonucleotide amidotransferase (FGAR-AT), first repeat.
FGAR-AT catalyzes the ATP-dependent conversion of
formylglycinamide ribonucleotide (FGAR) and glutamine to
formylglycinamidine ribonucleotide (FGAM), ADP,
phosphate, and glutamate in the fourth step of the
purine biosynthetic pathway. In eukaryotes and
Gram-negative bacteria, FGAR-AT is encoded by the purL
gene as a multidomain protein with a molecular mass of
about 140 kDa. In Gram-positive bacteria and archaea
FGAR-AT is a complex of three proteins: PurS, PurL, and
PurQ. PurL itself contains two tandem N- and C-terminal
domains (four domains altogether). The N-terminal
domains bind ATP and are related to the ATP-binding
domains of HypE, ThiL, SelD and PurM.
Length = 313
Score = 24.7 bits (55), Expect = 6.9
Identities = 8/22 (36%), Positives = 15/22 (68%)
Query: 12 NAVEFLKDFAAGGVSAAVAKTA 33
+ ++D AGG+S+AV++ A
Sbjct: 210 GLIVGIQDLGAGGLSSAVSEMA 231
>gnl|CDD|233552 TIGR01736, FGAM_synth_II, phosphoribosylformylglycinamidine
synthase II. Phosphoribosylformylglycinamidine synthase
is a single, long polypeptide in most Proteobacteria and
eukarotes. Three proteins are required in Bacillus
subtilis and many other species. This is the longest of
the three and is designated PurL,
phosphoribosylformylglycinamidine synthase II, or FGAM
synthase II [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 715
Score = 24.6 bits (54), Expect = 9.2
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 11 SNAVEFLKDFAAGGVSAAVAKTATA 35
+ V D + GG++ A+A+ A A
Sbjct: 603 AGLVSAAHDVSRGGLAVALAEMAAA 627
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
0.315 0.132 0.357
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,379,888
Number of extensions: 341510
Number of successful extensions: 368
Number of sequences better than 10.0: 1
Number of HSP's gapped: 368
Number of HSP's successfully gapped: 16
Length of query: 89
Length of database: 10,937,602
Length adjustment: 57
Effective length of query: 32
Effective length of database: 8,409,424
Effective search space: 269101568
Effective search space used: 269101568
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 (24.2 bits)