RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2055
(86 letters)
>gnl|CDD|238099 cd00170, SEC14, Sec14p-like lipid-binding domain. Found in
secretory proteins, such as S. cerevisiae
phosphatidylinositol transfer protein (Sec14p), and in
lipid regulated proteins such as RhoGAPs, RhoGEFs and
neurofibromin (NF1). SEC14 domain of Dbl is known to
associate with G protein beta/gamma subunits.
Length = 157
Score = 51.2 bits (123), Expect = 1e-09
Identities = 17/50 (34%), Positives = 31/50 (62%)
Query: 1 MFYRASVVSLEKIPLRVKAIHIVNQPFYFNALYAIFKPFLKQKLRRRNVV 50
+ + + + P R+KA++I+N P++F L+ I KPFL +K R++ V
Sbjct: 84 LLKKILKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVF 133
>gnl|CDD|216042 pfam00650, CRAL_TRIO, CRAL/TRIO domain.
Length = 152
Score = 46.5 bits (111), Expect = 6e-08
Identities = 15/35 (42%), Positives = 21/35 (60%)
Query: 13 IPLRVKAIHIVNQPFYFNALYAIFKPFLKQKLRRR 47
P R+ I IVN P+ FN ++ + KPFL K R +
Sbjct: 90 YPERLGKILIVNAPWIFNVIWKLIKPFLDPKTREK 124
>gnl|CDD|214706 smart00516, SEC14, Domain in homologues of a S. cerevisiae
phosphatidylinositol transfer protein (Sec14p). Domain
in homologues of a S. cerevisiae phosphatidylinositol
transfer protein (Sec14p) and in RhoGAPs, RhoGEFs and
the RasGAP, neurofibromin (NF1). Lipid-binding domain.
The SEC14 domain of Dbl is known to associate with G
protein beta/gamma subunits.
Length = 158
Score = 44.2 bits (105), Expect = 5e-07
Identities = 14/37 (37%), Positives = 24/37 (64%)
Query: 11 EKIPLRVKAIHIVNQPFYFNALYAIFKPFLKQKLRRR 47
+ P R+ ++I+N P++F L+ I KPFL +K R +
Sbjct: 92 DHYPERLGKVYIINPPWFFRVLWKIIKPFLDEKTREK 128
>gnl|CDD|224578 COG1664, CcmA, Integral membrane protein CcmA involved in cell
shape determination [Cell envelope biogenesis, outer
membrane].
Length = 146
Score = 25.7 bits (57), Expect = 2.5
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 48 NVVRLQTHYCCIGD--GKKVFIKKGFLIKGNCN 78
V L IGD K++ +++G + +G+C
Sbjct: 89 ERVELYPGGRVIGDITTKEITVEEGAIFEGDCE 121
>gnl|CDD|215615 PLN03180, PLN03180, reversibly glycosylated polypeptide;
Provisional.
Length = 346
Score = 25.5 bits (56), Expect = 4.3
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 5/23 (21%)
Query: 21 HIVN-----QPFYFNALYAIFKP 38
HI N PF+FN LY ++
Sbjct: 121 HIKNLLSPSTPFFFNTLYDPYRE 143
>gnl|CDD|238496 cd01014, nicotinamidase_related, Nicotinamidase_ related
amidohydrolases. Cysteine hydrolases of unknown
function that share the catalytic triad with other
amidohydrolases, like nicotinamidase, which converts
nicotinamide to nicotinic acid and ammonia.
Length = 155
Score = 24.9 bits (55), Expect = 5.2
Identities = 6/24 (25%), Positives = 9/24 (37%), Gaps = 5/24 (20%)
Query: 40 LKQKLRRRNVVRL-----QTHYCC 58
L++ LR + L T C
Sbjct: 90 LEEWLREAGIDHLVICGAMTEMCV 113
>gnl|CDD|240712 cd12266, RRM_like_XS, RNA recognition motif-like XS domain found
in plants. This XS (named after rice gene X and SGS3)
domain is a single-stranded RNA-binding domain (RBD)
and possesses a unique version of a RNA recognition
motif (RRM) fold. It is conserved in a family of plant
proteins including gene X and SGS3. Although its
function is still unknown, the plant SGS3 proteins are
thought to be involved in post-transcriptional gene
silencing (PTGS) pathways. In addition, they contain a
conserved aspartate residue that may be functionally
important. .
Length = 107
Score = 24.6 bits (54), Expect = 6.0
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 47 RNVVRLQTHYCCIGDGKKVFIKK 69
R+ +RL+ H+ G GKK +I K
Sbjct: 67 RDALRLEKHFAKDGRGKKDWIGK 89
>gnl|CDD|190568 pfam03214, RGP, Reversibly glycosylated polypeptide.
Length = 348
Score = 24.8 bits (54), Expect = 7.2
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 5/29 (17%)
Query: 14 PLRVKAIHIVN-----QPFYFNALYAIFK 37
P+ A HI N PF+FN LY ++
Sbjct: 112 PVDAVAQHIKNLKTPATPFFFNTLYDPYR 140
>gnl|CDD|173128 PRK14665, mnmA, tRNA-specific 2-thiouridylase MnmA; Provisional.
Length = 360
Score = 24.5 bits (53), Expect = 8.6
Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 10/81 (12%)
Query: 5 ASVVSLEKIPLRVKAIHIVNQPFYFNALYAIFKPFLKQKLRRRNV---------VRLQTH 55
AS+ +LEK + +K +IVN+ I K +++ V V+L
Sbjct: 275 ASLKALEKTEMWLKDWNIVNESRLLGCDDIIVKIRYRKQENHCTVTITPDNLLHVQLHEP 334
Query: 56 YCCIGDGK-KVFIKKGFLIKG 75
I +G+ F K G L+ G
Sbjct: 335 LTAIAEGQAAAFYKDGLLLGG 355
>gnl|CDD|164495 CHL00091, apcE, phycobillisome linker protein.
Length = 877
Score = 24.4 bits (53), Expect = 8.9
Identities = 11/38 (28%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 17 VKAIHIVNQPFYFNALYAIFK-PFLKQKLRRRNVVRLQ 53
++ +V + YF+ + + F+ P L K+R+R+ LQ
Sbjct: 208 IEGQELVKE--YFDVVISEFEAPALTDKVRKRSSTDLQ 243
>gnl|CDD|241284 cd01253, PH_ARHGAP21-like, ARHGAP21 and related proteins
pleckstrin homology (PH) domain. ARHGAP family genes
encode Rho/Rac/Cdc42-like GTPase activating proteins
with a RhoGAP domain. These proteins functions as a
GTPase-activating protein (GAP) for RHOA and CDC42.
ARHGAP21 controls the Arp2/3 complex and F-actin
dynamics at the Golgi complex by regulating the
activity of the small GTPase Cdc42. It is recruited to
the Golgi by to GTPase, ARF1, through its PH domain and
its helical motif. It is also required for CTNNA1
recruitment to adherens junctions. ARHGAP21 and it
related proteins all contains a PH domain and a RhoGAP
domain. Some of the members have additional N-terminal
domains including PDZ, SH3, and SPEC. The ARHGAP21 PH
domain interacts with the GTPbound forms of both ARF1
and ARF6 ARF-binding domain/ArfBD. The members here
include: ARHGAP15, ARHGAP21, and ARHGAP23. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They
share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 113
Score = 24.2 bits (53), Expect = 9.2
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 45 RRRNVVRLQTHYCC 58
+R+NV RL T
Sbjct: 74 KRKNVFRLTTSDGS 87
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
0.332 0.147 0.456
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,431,418
Number of extensions: 359303
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: 17
Length of query: 86
Length of database: 10,937,602
Length adjustment: 54
Effective length of query: 32
Effective length of database: 8,542,486
Effective search space: 273359552
Effective search space used: 273359552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.2 bits)