RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2527
(83 letters)
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 28.3 bits (64), Expect = 0.35
Identities = 12/34 (35%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 35 DLILVDDKV--VYTADEIKQSTAAVLLPNLFWAF 66
D++L+ D + V A ++ ++T ++ NLFWAF
Sbjct: 636 DVVLMRDDLSAVPEAIDLSRATRRIIKQNLFWAF 669
>gnl|CDD|233447 TIGR01525, ATPase-IB_hvy, heavy metal translocating P-type ATPase.
This model encompasses two equivalog models for the
copper and cadmium-type heavy metal transporting P-type
ATPases (TIGR01511 and TIGR01512) as well as those
species which score ambiguously between both models. For
more comments and references, see the files on TIGR01511
and 01512.
Length = 556
Score = 26.4 bits (59), Expect = 2.0
Identities = 10/34 (29%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 35 DLILVDDKV--VYTADEIKQSTAAVLLPNLFWAF 66
D++L++D + + TA ++ + T ++ NL WA
Sbjct: 484 DIVLLNDDLSSLPTAIDLSRKTRRIIKQNLAWAL 517
>gnl|CDD|100109 cd05831, Ribosomal_P1, Ribosomal protein P1. This subfamily
represents the eukaryotic large ribosomal protein P1.
Eukaryotic P1 and P2 are functionally equivalent to the
bacterial protein L7/L12, but are not homologous to
L7/L12. P1 is located in the L12 stalk, with proteins
P2, P0, L11, and 28S rRNA. P1 and P2 are the only
proteins in the ribosome to occur as multimers, always
appearing as sets of heterodimers. Recent data indicate
that eukaryotes have four copies (two heterodimers),
while most archaeal species contain six copies of L12p
(three homodimers) and bacteria may have four or six
copies (two or three homodimers), depending on the
species. Experiments using S. cerevisiae P1 and P2
indicate that P1 proteins are positioned more
internally with limited reactivity in the C-terminal
domains, while P2 proteins seem to be more externally
located and are more likely to interact with other
cellular components. In lower eukaryotes, P1 and P2 are
further subdivided into P1A, P1B, P2A, and P2B, which
form P1A/P2B and P1B/P2A heterodimers. Some plant
species have a third P-protein, called P3, which is not
homologous to P1 and P2. In humans, P1 and P2 are
strongly autoimmunogenic. They play a significant role
in the etiology and pathogenesis of systemic lupus
erythema (SLE). In addition, the ribosome-inactivating
protein trichosanthin (TCS) interacts with human P0,
P1, and P2, with its primary binding site located in
the C-terminal region of P2. TCS inactivates the
ribosome by depurinating a specific adenine in the
sarcin-ricin loop of 28S rRNA.
Length = 103
Score = 25.7 bits (57), Expect = 2.2
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 36 LILVDDKVVYTADEIKQST-AAVL-----LPNLF 63
LIL DD + TAD I AA + P LF
Sbjct: 9 LILHDDGIEITADNINALLKAAGVNVEPYWPGLF 42
>gnl|CDD|237904 PRK15080, PRK15080, ethanolamine utilization protein EutJ;
Provisional.
Length = 267
Score = 25.9 bits (58), Expect = 2.4
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 37 ILVDDKVVYTADE 49
IL D KVVY+ADE
Sbjct: 151 ILKDGKVVYSADE 163
>gnl|CDD|185211 PRK15311, PRK15311, putative fimbrial protein TcfD; Provisional.
Length = 359
Score = 25.8 bits (56), Expect = 3.3
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 11/59 (18%)
Query: 13 IVGSNNAHTKFRVLKIDRTEPRDL----------ILVDDKVVYTADEI-KQSTAAVLLP 60
I GSN + T F+V+K D + D I V V ++ D + K +T V+LP
Sbjct: 256 IEGSNKSGTGFQVIKSDSADTIDYAVSMNYGGRSIPVTRGVEFSLDNVDKAATRPVVLP 314
>gnl|CDD|216593 pfam01593, Amino_oxidase, Flavin containing amine oxidoreductase.
This family consists of various amine oxidases,
including maze polyamine oxidase (PAO) and various
flavin containing monoamine oxidases (MAO). The aligned
region includes the flavin binding site of these
enzymes. The family also contains phytoene
dehydrogenases and related enzymes. In vertebrates MAO
plays an important role regulating the intracellular
levels of amines via there oxidation; these include
various neurotransmitters, neurotoxins and trace amines.
In lower eukaryotes such as aspergillus and in bacteria
the main role of amine oxidases is to provide a source
of ammonium. PAOs in plants, bacteria and protozoa
oxidase spermidine and spermine to an aminobutyral,
diaminopropane and hydrogen peroxide and are involved in
the catabolism of polyamines. Other members of this
family include tryptophan 2-monooxygenase, putrescine
oxidase, corticosteroid binding proteins and
antibacterial glycoproteins.
Length = 444
Score = 25.2 bits (55), Expect = 5.3
Identities = 7/45 (15%), Positives = 11/45 (24%)
Query: 4 SCFPPQKYLIVGSNNAHTKFRVLKIDRTEPRDLILVDDKVVYTAD 48
L + RV I ++ + D AD
Sbjct: 206 LPQLIAAALGLLGGRVRLNTRVRSITKSGDGVTVTTVDGRTIEAD 250
>gnl|CDD|218589 pfam05431, Toxin_10, Insecticidal Crystal Toxin, P42. Family of
Bacillus insecticidal crystal toxins. Strains of
Bacillus that have this insecticidal activity use a
binary toxin comprised of two proteins, P51 and P42
(this family). Members of this family are highly
conserved between strains of different serotypes and
phage groups.
Length = 199
Score = 24.7 bits (54), Expect = 5.3
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 37 ILVDDKVVYTADEIKQSTAAVLLPNLFWAFKIATSV--HDKVS 77
I+V+D V+ IK + +L +W ++ + H K +
Sbjct: 41 IMVNDPVISLNTRIKTTPYYILKKYQYWHRAWSSILPAHSKKT 83
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 25.0 bits (55), Expect = 6.1
Identities = 14/46 (30%), Positives = 24/46 (52%)
Query: 18 NAHTKFRVLKIDRTEPRDLILVDDKVVYTADEIKQSTAAVLLPNLF 63
A + + LKID L LV+ ++ E+K+S ++ L+ NL
Sbjct: 879 LAERQLQELKIDVKSISSLKLVNLELESEIIELKKSLSSDLIENLE 924
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. This
model represents the AAA family ATPase, EccA, of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccA1,
EccA2, etc [Protein fate, Protein and peptide secretion
and trafficking].
Length = 557
Score = 24.8 bits (54), Expect = 6.6
Identities = 11/36 (30%), Positives = 23/36 (63%)
Query: 23 FRVLKIDRTEPRDLILVDDKVVYTADEIKQSTAAVL 58
R ++D ++ D + VDD + TAD++ ++ A++L
Sbjct: 521 ERDFRLDHSDRLDAVTVDDLMEITADDVARAVASLL 556
>gnl|CDD|240639 cd12162, 2-Hacid_dh_4, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids
to their corresponding keto acids. The general
mechanism is (R)-lactate + acceptor to pyruvate +
reduced acceptor. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as
formate dehydrogenase, glycerate dehydrogenase,
L-alanine dehydrogenase, and S-adenosylhomocysteine
yydrolase. Despite often low sequence identity, these
proteins typically have a characteristic arrangement of
2 similar subdomains of the alpha/beta Rossmann fold
NAD+ binding form. The NAD+ binding domain is inserted
within the linear sequence of the mostly N-terminal
catalytic domain, which has a similar domain structure
to the internal NAD binding domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD is bound, primarily to the
C-terminal portion of the 2nd (internal) domain. Some
related proteins have similar structural subdomain but
with a tandem arrangement of the catalytic and
NAD-binding subdomains in the linear sequence. While
many members of this family are dimeric, alanine DH is
hexameric and phosphoglycerate DH is tetrameric.
Length = 307
Score = 24.3 bits (54), Expect = 8.1
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 14/42 (33%)
Query: 29 DRTEPRDL--------ILVDDKVVYTADEIKQSTAAVLLPNL 62
DRT P ++ I++ +KVV A+ + Q LPNL
Sbjct: 31 DRTSPEEVVERIKDADIVITNKVVLDAEVLAQ------LPNL 66
>gnl|CDD|224313 COG1395, COG1395, Predicted transcriptional regulator
[Transcription].
Length = 313
Score = 24.2 bits (53), Expect = 8.6
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 7/44 (15%)
Query: 22 KFRVLKIDRTEP-------RDLILVDDKVVYTADEIKQSTAAVL 58
F V I+ RDL L+ KV+Y D + + TA L
Sbjct: 18 GFEVSDIEYRSRSFDIVARRDLRLLIIKVLYNIDGLSRETAEEL 61
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
0.323 0.136 0.397
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,998,312
Number of extensions: 308791
Number of successful extensions: 235
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 14
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 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.4 bits)