RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1263
(115 letters)
>gnl|CDD|216598 pfam01602, Adaptin_N, Adaptin N terminal region. This family
consists of the N terminal region of various alpha, beta
and gamma subunits of the AP-1, AP-2 and AP-3 adaptor
protein complexes. The adaptor protein (AP) complexes
are involved in the formation of clathrin-coated pits
and vesicles. The N-terminal region of the various
adaptor proteins (APs) is constant by comparison to the
C-terminal which is variable within members of the AP-2
family; and it has been proposed that this constant
region interacts with another uniform component of the
coated vesicles.
Length = 522
Score = 58.8 bits (143), Expect = 2e-11
Identities = 32/96 (33%), Positives = 45/96 (46%), Gaps = 19/96 (19%)
Query: 13 KKIVPNLVRNLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGK-NDVEASEAMNDIL 71
K++P LVR L NL+ V +P+LQVKIL+LL + E E + DIL
Sbjct: 187 NKLLPLLVRRLCNLL-----------TVCNPWLQVKILRLLTRYAPQDPREPKELLEDIL 235
Query: 72 AQVATNTETSKNVGNTILYETVLSIMDIKSESGLRS 107
+ N N +LYE V +I+ + E L
Sbjct: 236 NLLQ-------NSNNAVLYEAVKTIIHLDPEPELIV 264
>gnl|CDD|219897 pfam08549, SWI-SNF_Ssr4, Fungal domain of unknown function
(DUF1750). This is a fungal domain of unknown function.
Length = 669
Score = 28.1 bits (62), Expect = 1.1
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
Query: 10 HHFKKIVPNLVRNLKNLILAGYSPEHDVSGVSDPFLQVKIL-KLLRILGKNDVEASEAMN 68
H K V ++VR ++ PE DVS V L KI + I+G +D++ +
Sbjct: 444 HKAKYKVDDIVREVEKSWGKPIVPEPDVSCVEKGGLLEKIEPEPSLIIGDSDIDMGHTDS 503
Query: 69 DILAQVATNTETSKNVGNT 87
+L Q T T +
Sbjct: 504 HLLDQFNTGGTTFQTASTP 522
>gnl|CDD|224420 COG1503, eRF1, Peptide chain release factor 1 (eRF1) [Translation,
ribosomal structure and biogenesis].
Length = 411
Score = 27.3 bits (61), Expect = 2.1
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 6/66 (9%)
Query: 15 IVPNLVRNLKNLILAGYSPEHDVSGVSDPF---LQVKILKLLRILGKNDVEASEAMN--- 68
+P + LK +IL G P + D L+ K+L L+ + + E +
Sbjct: 208 FLPIAKKELKGIILGGPGPTKEEFVEGDYLHHELKKKVLGLVDVSYTGESGLRELIEKAE 267
Query: 69 DILAQV 74
D L V
Sbjct: 268 DALKDV 273
>gnl|CDD|222838 PHA01806, PHA01806, hypothetical protein.
Length = 200
Score = 26.4 bits (58), Expect = 3.1
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 29 AGYSPEHDVSGVSDPFLQVKILKLLRILGKNDVE 62
G+S E+ G F V LK R L DV+
Sbjct: 88 GGWSQEYHDGGDGGIFKGVVSLKGCRGLEGMDVD 121
>gnl|CDD|176018 cd04054, C2A_Rasal1_RasA4, C2 domain first repeat present in
RasA1 and RasA4. Rasal1 and RasA4 are both members of
GAP1 (GTPase activating protein 1). Rasal1 responds to
repetitive Ca2+ signals by associating with the plasma
membrane and deactivating Ras. RasA4 suppresses Ras
function by enhancing the GTPase activity of Ras
proteins resulting in the inactive GDP-bound form of
Ras. In this way it can control cellular proliferation
and differentiation. Both of these proteins contains
two C2 domains, a Ras-GAP domain, a plextrin homology
(PH)-like domain, and a Bruton's Tyrosine Kinase (BTK)
zinc binding domain. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
This cd contains the first C2 repeat, C2A, and has a
type-I topology.
Length = 121
Score = 25.6 bits (56), Expect = 4.7
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 33 PEHDVSGVSDPFLQVKI 49
P D++G SDP+ VK+
Sbjct: 13 PAKDITGSSDPYCIVKV 29
>gnl|CDD|173933 cd08174, G1PDH-like, Glycerol-1-phosphate dehydrogenase-like.
Glycerol-1-phosphate dehydrogenase-like. The proteins
of this family have not been characterized. The protein
sequences have high similarity with that of
glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays
a role in the synthesis of phosphoglycerolipids in
Gram-positive bacterial species. It catalyzes the
reversibly reduction of dihydroxyacetone phosphate
(DHAP) to glycerol-1-phosphate (G1P) in a
NADH-dependent manner. Its activity requires Ni++ ion.
This family is bacteria specific.
Length = 331
Score = 26.1 bits (58), Expect = 5.4
Identities = 13/60 (21%), Positives = 26/60 (43%)
Query: 14 KIVPNLVRNLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGKNDVEASEAMNDILAQ 73
I + L L+ V+ VS P + ++ + L+ +VEA E +++ A+
Sbjct: 5 DIGEGAIARLGELLSDRNPNFGRVAVVSGPGVGEQVAESLKTSFSAEVEAVEEVSNSDAE 64
>gnl|CDD|165125 PHA02758, PHA02758, hypothetical protein; Provisional.
Length = 321
Score = 25.7 bits (56), Expect = 5.7
Identities = 11/46 (23%), Positives = 19/46 (41%)
Query: 53 LRILGKNDVEASEAMNDILAQVATNTETSKNVGNTILYETVLSIMD 98
LRI+ K VEA+ I+ + + + +L+I D
Sbjct: 3 LRIISKASVEAAAISIAIVGFAILEFSLFSILAAGLAFLGILAIFD 48
>gnl|CDD|218676 pfam05649, Peptidase_M13_N, Peptidase family M13. M13 peptidases
are well-studied proteases found in a wide range of
organisms including mammals and bacteria. In mammals
they participate in processes such as cardiovascular
development, blood-pressure regulation, nervous control
of respiration, and regulation of the function of
neuropeptides in the central nervous system. In bacteria
they may be used for digestion of milk.
Length = 380
Score = 25.8 bits (57), Expect = 6.3
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 49 ILKLLRILGKNDVEASEAMNDILA 72
I KLL++ G ++ EA +A D++A
Sbjct: 162 IAKLLKLAGLDEDEAEKAAEDVVA 185
>gnl|CDD|130057 TIGR00984, 3a0801s03tim44, mitochondrial import inner membrane,
translocase subunit. The mitochondrial protein
translocase (MPT) family, which brings nuclearly encoded
preproteins into mitochondria, is very complex with 19
currently identified protein constituents.These proteins
include several chaperone proteins, four proteins of the
outer membrane translocase (Tom) import receptor, five
proteins of the Tom channel complex, five proteins of
the inner membrane translocase (Tim) and three "motor"
proteins. This family is specific for the Tim proteins
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 378
Score = 25.6 bits (56), Expect = 6.7
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 4/57 (7%)
Query: 56 LGKNDVEASEAMNDILAQVATNTETS-KNVGNTILYETVLSIMDIKSESGLRSFFTT 111
LGK +A A + + S + V +T +Y+ V M +S F
Sbjct: 77 LGKKMKKAGAET---AKTAAEHVDKSAEPVRDTAVYKHVSQSMKDGKDSSRYGFIAD 130
>gnl|CDD|216721 pfam01820, Dala_Dala_lig_N, D-ala D-ala ligase N-terminus. This
family represents the N-terminal region of the
D-alanine--D-alanine ligase enzyme EC:6.3.2.4 which is
thought to be involved in substrate binding. D-Alanine
is one of the central molecules of the cross-linking
step of peptidoglycan assembly. There are three enzymes
involved in the D-alanine branch of peptidoglycan
biosynthesis: the pyridoxal phosphate-dependent
D-alanine racemase (Alr), the ATP-dependent
D-alanine:D-alanine ligase (Ddl), and the ATP-dependent
D-alanine:D-alanine-adding enzyme (MurF).
Length = 110
Score = 24.9 bits (55), Expect = 7.2
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 26 LILAGYSPEHDVS 38
++ G S EH+VS
Sbjct: 5 VLFGGRSSEHEVS 17
>gnl|CDD|178373 PLN02774, PLN02774, brassinosteroid-6-oxidase.
Length = 463
Score = 25.5 bits (56), Expect = 8.2
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 13/66 (19%)
Query: 48 KILKLLRILGKNDVEASEAMNDILAQVATNTETSKNVGN--------TIL---YETV--L 94
I+++LR L + + E D+L + + + TIL YETV
Sbjct: 224 NIVRMLRQLIQERRASGETHTDMLGYLMRKEGNRYKLTDEEIIDQIITILYSGYETVSTT 283
Query: 95 SIMDIK 100
S+M +K
Sbjct: 284 SMMAVK 289
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
0.317 0.133 0.361
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,509,422
Number of extensions: 459174
Number of successful extensions: 495
Number of sequences better than 10.0: 1
Number of HSP's gapped: 494
Number of HSP's successfully gapped: 25
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
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 (21.7 bits)
S2: 53 (24.1 bits)