RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14373
(65 letters)
>gnl|CDD|184438 PRK13985, ureB, urease subunit beta; Provisional.
Length = 568
Score = 29.1 bits (65), Expect = 0.11
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 33 DFKFDDI--HME-DDDTLKVRSNCGLCRSMPMSSVS 65
D +F+D H+E + +T V + S P + VS
Sbjct: 525 DMQFNDTTAHIEVNPETYHVFVDGKEVTSKPANKVS 560
>gnl|CDD|227017 COG4671, COG4671, Predicted glycosyl transferase [General
function prediction only].
Length = 400
Score = 28.5 bits (64), Expect = 0.16
Identities = 9/37 (24%), Positives = 20/37 (54%)
Query: 16 QRVQSLRVPSAAKLNLHDFKFDDIHMEDDDTLKVRSN 52
V +++PS K + ++ D+ + ++T K+RS
Sbjct: 60 AGVDFVKLPSLIKGDNGEYGLVDLDGDLEETKKLRSQ 96
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 26.0 bits (58), Expect = 1.2
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 16 QRVQSLRVPSAAKLNLHDFKFDDIHMEDDDTLKV 49
+R+QS+ +P +L DI ++D D L
Sbjct: 110 KRIQSIYMPK----DLLQASLADIDLDDRDRLDA 139
>gnl|CDD|235875 PRK06848, PRK06848, hypothetical protein; Validated.
Length = 139
Score = 25.9 bits (57), Expect = 1.4
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 42 EDDDTLKVRSNCGLCRSM 59
EDD + V S CG CR +
Sbjct: 86 EDDREIWVVSPCGACREL 103
>gnl|CDD|234731 PRK00343, ipk, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
Provisional.
Length = 271
Score = 24.7 bits (55), Expect = 3.8
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 19 QSLRVPSAAKLNL 31
L P+ AKLNL
Sbjct: 5 MLLDWPAPAKLNL 17
>gnl|CDD|200501 cd11240, Sema_4, The Sema domain, a protein interacting module, of
class 4 semaphorins (Sema4). Class 4 semaphorins
(Sema4s) are transmembrane regulator molecules involved
in the development of the nervous system, immune
response, cytoskeletal organization, angiogenesis, and
cell-cell interactions. There are 7 distinct subfamilies
in class 4 semaphorins, named 4A to 4G. Several class 4
subfamilies play important roles in the immune system
and are called "immune semaphorins". Sema4A plays
critical roles in T cell-DC interactions in the immune
response. Sema4D/CD100, expressed by lymphocytes,
promotes the aggregation and survival of B lymphocytes
and inhibits cytokine-induced migration of immune cells
in vitro. It is required for normal activation of B and
T lymphocytes. Sema4B negatively regulates basophil
functions through T cell-basophil contacts and
significantly inhibits IL-4 and IL-6 production from
basophils in response to various stimuli, including IL-3
and papain. Sema4s not only influence the activation
state of cells but also modulate their migration and
survival. The effects of Sema4s on nonlymphoid cells are
mediated by plexin D1 and plexin Bs. The Sema4G and
Sema4C genes are expressed in the developing cerebellar
cortex and are involved in neural tube closure and
development of cerebellar granules cells through
receptor plexin B2. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 456
Score = 24.7 bits (54), Expect = 4.0
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 24 PSAAKLNLHDFKFDDIHMED 43
P +NL DF I ED
Sbjct: 93 PRCTYINLSDFSLSSIKFED 112
>gnl|CDD|185212 PRK15312, PRK15312, antimicrobial resistance protein Mig-14;
Provisional.
Length = 298
Score = 24.4 bits (53), Expect = 4.5
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 8/40 (20%)
Query: 32 HDFKFDDIHMEDDDTLK------VRSNCGLC--RSMPMSS 63
H++ F H ++DD +K N G+ R+ P+SS
Sbjct: 46 HNWHFKFFHYKEDDKIKGAYFICNDQNIGILTRRTFPLSS 85
>gnl|CDD|241302 cd01272, PTB1_Fe65, Fe65 N-terminal Phosphotyrosine-binding (PTB)
domain. The neuronal adaptor protein Fe65 is involved
in brain development, Alzheimer disease amyloid
precursor protein (APP) signaling, and proteolytic
processing of APP. It contains three protein-protein
interaction domains, one WW domain, and a unique tandem
array of phosphotyrosine-binding (PTB) domains. The
N-terminal PTB domain was shown to interact with a
variety of proteins, including the low density
lipoprotein receptor-related protein (LRP-1), the
ApoEr2 receptor, and the histone acetyltransferase
Tip60. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a
NPXY motif with differing requirements for
phosphorylation of the tyrosine, although more recent
studies have found that some types of PTB domains can
bind to peptides lack tyrosine residues altogether. In
contrast to SH2 domains, which recognize
phosphotyrosine and adjacent carboxy-terminal residues,
PTB-domain binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 138
Score = 24.2 bits (53), Expect = 4.6
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 9 TQSLIQCQRVQSLRVPSAAKLNLHDFKF 36
S++ Q + S+RV + N DF +
Sbjct: 71 DHSVLHSQPIHSIRVWGVGRDNGRDFAY 98
>gnl|CDD|130688 TIGR01627, A_thal_3515, uncharacterized plant-specific domain
TIGR01627. This model represents an uncharacterized
domain found in both Arabidopsis thaliana (at least 10
copies) and Oryza sativa. Most member proteins have only
a short stretch of sequence N-terminal to this domain,
but one has a long N-terminal extension that includes a
protein kinase domain (pfam00069).
Length = 225
Score = 23.7 bits (51), Expect = 9.8
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 4 RILTHTQSLIQCQRVQSLRVPSAAKLNLHDFKFDDIHMEDDDTLKVRSNCGLCRSMP--M 61
+L H ++ +C+ V + + S KL L D ++ D + V G P M
Sbjct: 100 NLLQHARANPECRPVMNHQGSSDCKLELRDLP-QQVYNTKWDVIVVDGPRGDDLETPGRM 158
Query: 62 SSV 64
SS+
Sbjct: 159 SSI 161
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
0.326 0.134 0.397
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,928,446
Number of extensions: 191737
Number of successful extensions: 204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 9
Length of query: 65
Length of database: 10,937,602
Length adjustment: 36
Effective length of query: 29
Effective length of database: 9,340,858
Effective search space: 270884882
Effective search space used: 270884882
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)