RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17526
(70 letters)
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 27.7 bits (63), Expect = 0.40
Identities = 6/8 (75%), Positives = 8/8 (100%)
Query: 41 SHGGHLSH 48
+HGGHL+H
Sbjct: 120 AHGGHLTH 127
>gnl|CDD|99733 cd00378, SHMT, Serine-glycine hydroxymethyltransferase (SHMT). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). SHMT
carries out interconversion of serine and glycine; it
catalyzes the transfer of hydroxymethyl group of N5,
N10-methylene tetrahydrofolate to glycine resulting in
the formation of serine and tetrahydrofolate. Both
eukaryotic and prokaryotic SHMT enzymes form tight
obligate homodimers; the mammalian enzyme forms a
homotetramer comprising four pyridoxal phosphate-bound
active sites.
Length = 402
Score = 26.4 bits (59), Expect = 0.96
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 41 SHGGHLSHMQ 50
SHGGHL+H
Sbjct: 114 SHGGHLTHGS 123
>gnl|CDD|233764 TIGR02177, PorB_KorB, 2-oxoacid:acceptor oxidoreductase, beta
subunit, pyruvate/2-ketoisovalerate family. A number
of anaerobic and microaerophilic species lack pyruvate
dehydrogenase and have instead a four subunit,
oxygen-sensitive pyruvate oxidoreductase, with either
ferredoxins or flavodoxins used as the acceptor.
Several related four-subunit enzymes may exist in the
same species. This model describes a subfamily of beta
subunits, representing mostly pyruvate and
2-ketoisovalerate specific enzymes.
Length = 287
Score = 25.9 bits (57), Expect = 1.7
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 36 WCQGCSHGGHLSHMQEWFMKNNVCP 60
WC GC G LS +Q + N+ P
Sbjct: 3 WCPGCGDFGILSALQRALAELNLDP 27
>gnl|CDD|215243 PLN02444, PLN02444, HMP-P synthase.
Length = 642
Score = 25.7 bits (56), Expect = 2.2
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 41 SHGGHLSHMQEWFMKNNVCPTG 62
S G H+ +EW ++N+ P G
Sbjct: 258 STGRHIHETREWILRNSPVPVG 279
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 25.6 bits (57), Expect = 2.4
Identities = 7/8 (87%), Positives = 8/8 (100%)
Query: 41 SHGGHLSH 48
SHGGHL+H
Sbjct: 121 SHGGHLTH 128
>gnl|CDD|222962 PHA03036, PHA03036, DNA polymerase; Provisional.
Length = 1004
Score = 25.4 bits (56), Expect = 2.9
Identities = 7/13 (53%), Positives = 9/13 (69%), Gaps = 1/13 (7%)
Query: 52 WF-MKNNVCPTGC 63
WF + NN+ P GC
Sbjct: 112 WFYVLNNISPDGC 124
>gnl|CDD|219284 pfam07064, RIC1, RIC1. RIC1 has been identified in yeast as a
Golgi protein involved in retrograde transport to the
cis-Golgi network. It forms a heterodimer with Rgp1 and
functions as a guanyl-nucleotide exchange factor.
Length = 251
Score = 25.0 bits (55), Expect = 3.5
Identities = 6/35 (17%), Positives = 9/35 (25%), Gaps = 4/35 (11%)
Query: 23 QMLVFCLVSGL----YSWCQGCSHGGHLSHMQEWF 53
+L L Q H + H+ E
Sbjct: 85 YILRHLLKRNWGEQALYLAQHMRHLPYFPHVLELL 119
>gnl|CDD|239470 cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family),
2-oxoglutarate ferredoxin oxidoreductase (OGFOR)
subfamily, TPP-binding module; OGFOR catalyzes the
oxidative decarboxylation of 2-oxo-acids, with
ferredoxin acting as an electron acceptor. In the TCA
cycle, OGFOR catalyzes the oxidative decarboxylation of
2-oxoglutarate to succinyl-CoA. In the reductive
tricarboxylic acid cycle found in the anaerobic
autotroph Hydrogenobacter thermophilus, OGFOR catalyzes
the reductive carboxylation of succinyl-CoA to produce
2-oxoglutarate. Thauera aromatica OGFOR has been shown
to provide reduced ferredoxin to benzoyl-CoA reductase,
a key enzyme in the anaerobic metabolism of aromatic
compounds. OGFOR is dependent on TPP and a divalent
metal cation for activity.
Length = 193
Score = 24.8 bits (55), Expect = 4.4
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 36 WCQGCSHGGHLSHMQE 51
WC GC G L + +
Sbjct: 1 WCPGCGDGSILKALAK 16
>gnl|CDD|237006 PRK11867, PRK11867, 2-oxoglutarate ferredoxin oxidoreductase
subunit beta; Reviewed.
Length = 286
Score = 24.4 bits (54), Expect = 5.1
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 36 WCQGCSHGGHLSHMQEWFMKN 56
WC GC G L+ +Q +
Sbjct: 19 WCPGCGDGSILAALQ-RALAE 38
>gnl|CDD|235604 PRK05778, PRK05778, 2-oxoglutarate ferredoxin oxidoreductase
subunit beta; Validated.
Length = 301
Score = 24.5 bits (54), Expect = 5.7
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 36 WCQGCSHGGHLSHMQE 51
WC GC + G L+ + +
Sbjct: 20 WCPGCGNFGILNAIIQ 35
>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger. There are 8 cysteine/
histidine residues which are proposed to be the
conserved residues involved in zinc binding. The
protein, of which this domain is the conserved region,
participates in diverse functions relevant to
chromosome metabolism and cell cycle control.
Length = 73
Score = 23.2 bits (50), Expect = 9.8
Identities = 8/22 (36%), Positives = 9/22 (40%)
Query: 40 CSHGGHLSHMQEWFMKNNVCPT 61
C H HL + W N CP
Sbjct: 50 CGHAFHLHCISRWLKTRNTCPL 71
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
0.327 0.140 0.519
Gapped
Lambda K H
0.267 0.0689 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,234,262
Number of extensions: 212741
Number of successful extensions: 275
Number of sequences better than 10.0: 1
Number of HSP's gapped: 275
Number of HSP's successfully gapped: 15
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.3 bits)