RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14814
(100 letters)
>gnl|CDD|189895 pfam01221, Dynein_light, Dynein light chain type 1.
Length = 86
Score = 137 bits (348), Expect = 4e-44
Identities = 44/83 (53%), Positives = 65/83 (78%)
Query: 13 KIKASDMTVDMEKETIRFAQDAIAKYKVEKDIAMYIKTQLDKTYEPTWHCIVGRNFGSFV 72
+K +DM +M+++ I A +A+ K+ VEKDIA +IK + DK Y PTWHCIVG+NFGS+V
Sbjct: 4 VVKNADMPEEMQEDAIECAAEALEKFNVEKDIAAHIKKEFDKKYGPTWHCIVGKNFGSYV 63
Query: 73 THESGNFLYFYLDKIAILVFKSG 95
THE+ +F+YFY+ ++A L+FK+G
Sbjct: 64 THETKHFIYFYIGQLAFLLFKTG 86
>gnl|CDD|185421 PTZ00059, PTZ00059, dynein light chain; Provisional.
Length = 90
Score = 119 bits (300), Expect = 5e-37
Identities = 49/82 (59%), Positives = 66/82 (80%)
Query: 14 IKASDMTVDMEKETIRFAQDAIAKYKVEKDIAMYIKTQLDKTYEPTWHCIVGRNFGSFVT 73
+K +DM+ DM+++ I A A+ K+ +EKDIA YIK + DK Y PTWHCIVGRNFGS+VT
Sbjct: 9 VKNADMSEDMQQDAIDCANQALEKFNIEKDIAAYIKKEFDKKYNPTWHCIVGRNFGSYVT 68
Query: 74 HESGNFLYFYLDKIAILVFKSG 95
HE+ +F+YFYL ++AIL+FKSG
Sbjct: 69 HETKHFIYFYLGQVAILLFKSG 90
>gnl|CDD|166697 PLN03058, PLN03058, dynein light chain type 1 family protein;
Provisional.
Length = 128
Score = 81.6 bits (201), Expect = 2e-21
Identities = 36/85 (42%), Positives = 55/85 (64%), Gaps = 3/85 (3%)
Query: 13 KIKASDMTVDMEKETIRFAQD---AIAKYKVEKDIAMYIKTQLDKTYEPTWHCIVGRNFG 69
+++ASDM + ++ A+D A+ K +A+ +K + D Y P WHCIVG +FG
Sbjct: 37 RVRASDMPLVLQNRAFSCARDILDAMPGKLDSKRLALALKKEFDSAYGPAWHCIVGTSFG 96
Query: 70 SFVTHESGNFLYFYLDKIAILVFKS 94
S+VTH +G FLYF +DK+ IL+FK+
Sbjct: 97 SYVTHSTGGFLYFSIDKVYILLFKT 121
>gnl|CDD|235730 PRK06187, PRK06187, long-chain-fatty-acid--CoA ligase; Validated.
Length = 521
Score = 29.8 bits (68), Expect = 0.17
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 18 DMTVDMEKETIRFAQDAIAKYKVEKDIAMYIKTQLDKT 55
T+D KE F + +AK+K+ K I +L +T
Sbjct: 469 GATLD-AKELRAFLRGRLAKFKLPKRI--AFVDELPRT 503
>gnl|CDD|224957 COG2046, MET3, ATP sulfurylase (sulfate adenylyltransferase)
[Inorganic ion transport and metabolism].
Length = 397
Score = 28.1 bits (63), Expect = 0.72
Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 6/57 (10%)
Query: 22 DMEKETIRFAQDAIAKYKVEKDIAMYIKTQLDKTY----EPTWHCIVGRNFGSFVTH 74
D+ E +A+ K+ D Y E H I+ +N+G TH
Sbjct: 226 DIPDEVRMEYYEALLKHYYPPDRVFLSVLPAAMRYAGPREALLHAIIRKNYGC--TH 280
>gnl|CDD|216677 pfam01747, ATP-sulfurylase, ATP-sulfurylase. This domain is the
catalytic domain of ATP-sulfurylase or sulfate
adenylyltransferase EC:2.7.7.4 some of which are part of
a bifunctional polypeptide chain associated with
adenosyl phosphosulphate (APS) kinase pfam01583. Both
enzymes are required for PAPS
(phosphoadenosine-phosphosulfate) synthesis from
inorganic sulphate. ATP sulfurylase catalyzes the
synthesis of adenosine-phosphosulfate APS from ATP and
inorganic sulphate.
Length = 214
Score = 27.9 bits (63), Expect = 0.80
Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 6/57 (10%)
Query: 22 DMEKETIRFAQDAIAKYKVEKDIAMYIKTQLDKTY----EPTWHCIVGRNFGSFVTH 74
D+ E A +A+ + D + L Y E H I+ +N+G TH
Sbjct: 63 DIPAEVRVRAYEALIENYFPPDRVVLAPLPLAMRYAGPREALLHAIIRKNYG--CTH 117
>gnl|CDD|173895 cd00517, ATPS, ATP-sulfurylase. ATP-sulfurylase (ATPS), also known
as sulfate adenylate transferase, catalyzes the transfer
of an adenylyl group from ATP to sulfate, forming
adenosine 5'-phosphosulfate (APS). This reaction is
generally accompanied by a further reaction, catalyzed
by APS kinase, in which APS is phosphorylated to yield
3'-phospho-APS (PAPS). In some organisms the APS kinase
is a separate protein, while in others it is
incorporated with ATP sulfurylase in a bifunctional
enzyme that catalyzes both reactions. In bifunctional
proteins, the domain that performs the kinase activity
can be attached at the N-terminal end of the sulfurylase
unit or at the C-terminal end, depending on the
organism. While the reaction is ubiquitous among
organisms, the physiological role of the reaction
varies. In some organisms it is used to generate APS
from sulfate and ATP, while in others it proceeds in the
opposite direction to generate ATP from APS and
pyrophosphate. ATP sulfurylase can be a monomer, a
homodimer, or a homo-oligomer, depending on the
organism. ATPS belongs to a large superfamily of
nucleotidyltransferases that includes pantothenate
synthetase (PanC), phosphopantetheine
adenylyltransferase (PPAT), and the amino-acyl tRNA
synthetases. The enzymes of this family are structurally
similar and share a dinucleotide-binding domain.
Length = 353
Score = 27.6 bits (62), Expect = 1.2
Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 6/53 (11%)
Query: 26 ETIRFAQDAIAKYKVEKDIAMYIKTQLDKTY----EPTWHCIVGRNFGSFVTH 74
E A +A+ + + + L Y E WH I+ +N+G+ TH
Sbjct: 205 EVRMRAYEALLEEYYLPERTVLAILPLPMRYAGPREALWHAIIRKNYGA--TH 255
>gnl|CDD|233395 TIGR01396, FlgB, flagellar basal-body rod protein FlgB. This model
represents FlgB, one of several components of bacterial
flagella that share a domain described by Pfam model
pfam00460. FlgB is part of the basal body [Cellular
processes, Chemotaxis and motility].
Length = 131
Score = 25.8 bits (57), Expect = 2.9
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 11 PTKIKASDMTVDMEKETIRFAQDAI 35
T++K VD++ E AQ+ +
Sbjct: 86 TTQVKNDGNNVDIDSEMAELAQNQM 110
>gnl|CDD|235005 PRK02122, PRK02122, glucosamine-6-phosphate deaminase-like protein;
Validated.
Length = 652
Score = 26.1 bits (58), Expect = 3.5
Identities = 9/30 (30%), Positives = 18/30 (60%)
Query: 18 DMTVDMEKETIRFAQDAIAKYKVEKDIAMY 47
+M V + E + ++AI K++ +KD A +
Sbjct: 580 EMAVPLSPEELLRKRNAIFKHQSQKDSAPF 609
>gnl|CDD|217530 pfam03390, 2HCT, 2-hydroxycarboxylate transporter family. The
2-hydroxycarboxylate transporter family is a family of
secondary transporters found exclusively in the
bacterial kingdom. They function in the metabolism of
the di- and tricarboxylates malate and citrate, mostly
in fermentative pathways involving decarboxylation of
malate or oxaloacetate.
Length = 414
Score = 25.6 bits (57), Expect = 4.8
Identities = 11/17 (64%), Positives = 13/17 (76%), Gaps = 3/17 (17%)
Query: 75 ESGNFLYFYLDKIAILV 91
+SGNFLYFY IA L+
Sbjct: 91 KSGNFLYFY---IACLI 104
>gnl|CDD|238594 cd01189, INT_phiLC3_C, phiLC3 phage and phage-related integrases,
site-specific recombinases, DNA breaking-rejoining
enzymes, C-terminal catalytic domain. This CD includes
various bacterial (mainly gram positive) and phage
integrases, including those similar to Lactococcus phage
phiLC3, TPW22, Tuc2009, BK5-T, A2, bIL285, bIL286,
bIL311, ul36 and phi g1e; Staphylococcus aureus phage
phi13 and phi42; Oenococcus oeni phage fOg44;
Streptococcus thermophilus phage O1205 and Sfi21; and
Streptococcus pyogenes phage T12 and T270.
Length = 191
Score = 25.3 bits (56), Expect = 5.3
Identities = 11/43 (25%), Positives = 21/43 (48%)
Query: 10 KPTKIKASDMTVDMEKETIRFAQDAIAKYKVEKDIAMYIKTQL 52
KP K K+S T+ ++K+TI ++ + K + +L
Sbjct: 71 KPPKTKSSIRTIPLDKKTIAILKEYKKEQKKYLLGEINNDDEL 113
>gnl|CDD|237813 PRK14775, PRK14775, lipoprotein signal peptidase; Provisional.
Length = 170
Score = 25.2 bits (55), Expect = 5.4
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 65 GRNFGSFVTHESGNFLYFYLDKIAILVF 92
G +FG F ES N ++ Y+ IL+
Sbjct: 50 GISFGMFGALESSNLIFTYVSLGVILML 77
>gnl|CDD|217011 pfam02388, FemAB, FemAB family. The femAB operon codes for two
nearly identical approximately 50-kDa proteins involved
in the formation of the Staphylococcal pentaglycine
interpeptide bridge in peptidoglycan. These proteins are
also considered as a factor influencing the level of
methicillin resistance.
Length = 408
Score = 25.3 bits (56), Expect = 6.5
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 10 KPTKIKASDMTVDMEKETIRFAQDAIAKYKVEKDIA 45
K K+ + + ++ I A++ IAKY E +A
Sbjct: 273 KKNKLAELEQQLASLEKRIDEAKELIAKYGNEVPLA 308
>gnl|CDD|180124 PRK05537, PRK05537, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Validated.
Length = 568
Score = 25.4 bits (56), Expect = 7.3
Identities = 9/18 (50%), Positives = 11/18 (61%), Gaps = 2/18 (11%)
Query: 57 EPTWHCIVGRNFGSFVTH 74
E WH I+ RN+G TH
Sbjct: 268 EALWHAIIRRNYG--CTH 283
>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP):
TBPs are transcription factors present in archaea and
eukaryotes, that recognize promoters and initiate
transcription. TBP has been shown to be an essential
component of three different transcription initiation
complexes: SL1, TFIID and TFIIIB, directing
transcription by RNA polymerases I, II and III,
respectively. TBP binds directly to the TATA box
promoter element, where it nucleates polymerase
assembly, thus defining the transcription start site.
TBP's binding in the minor groove induces a dramatic
DNA bending while its own structure barely changes. The
conserved core domain of TBP, which binds to the TATA
box, has a bipartite structure, with intramolecular
symmetry generating a saddle-shaped structure that sits
astride the DNA.
Length = 174
Score = 24.9 bits (55), Expect = 8.1
Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 80 LYFYLD--KIAILVFKSGSM 97
L + L+ KIA L+F+SG M
Sbjct: 39 LVYRLEDPKIAALIFRSGKM 58
>gnl|CDD|234746 PRK00394, PRK00394, transcription factor; Reviewed.
Length = 179
Score = 24.8 bits (55), Expect = 8.6
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 80 LYFYLD--KIAILVFKSGSM 97
L + L+ KIA L+F+SG +
Sbjct: 38 LVYRLEDPKIAALIFRSGKV 57
>gnl|CDD|180196 PRK05680, flgB, flagellar basal body rod protein FlgB; Reviewed.
Length = 137
Score = 24.4 bits (54), Expect = 9.0
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 20 TVDMEKETIRFAQDAI 35
TVDM+ E FA+++I
Sbjct: 98 TVDMDVERTEFAKNSI 113
>gnl|CDD|213302 cd05936, FC-FACS_FadD_like, Prokaryotic long-chain fatty acid CoA
synthetases similar to Escherichia coli FadD. This
subfamily of the AMP-forming adenylation family contains
Escherichia coli FadD and similar prokaryotic fatty acid
CoA synthetases. FadD was characterized as a long-chain
fatty acid CoA synthetase. The gene fadD is regulated by
the fatty acid regulatory protein FadR. Fatty acid CoA
synthetase catalyzes the formation of fatty acyl-CoA in
a two-step reaction: the formation of a fatty acyl-AMP
molecule as an intermediate, followed by the formation
of a fatty acyl-CoA. This is a required step before free
fatty acids can participate in most catabolic and
anabolic reactions.
Length = 468
Score = 24.8 bits (55), Expect = 9.1
Identities = 10/42 (23%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 14 IKASDMTVDMEKETIRFAQDAIAKYKVEKDIAMYIKTQLDKT 55
+ ++ E+E I F ++ +A YKV + + + +L K+
Sbjct: 419 VLKEGASLT-EEELIAFCRERLAAYKVPRQV--EFRDELPKS 457
>gnl|CDD|200502 cd11241, Sema_5, The Sema domain, a protein interacting module, of
semaphorin 5 (Sema5). Class 5 semaphorins are
transmembrane glycoproteins characterized by unique
thrombospondin specific repeats in the extracellular
region of the protein. There are three subfamilies in
class 5 semaphorins, namely 5A, 5B and 5C. Sema5A and
Sema5B function as guidance cues for optic and
corticofugal nerve development, respectively.
Sema5A-induced cell migration requires Met signaling.
Sema5C is an early development gene and may play a role
in odor-guided behavior. Sema5A is also implicated in
cancer. In a screening model for metastasis, the
Drosophila Sema5A ortholog, Dsema-5C, has been found to
be required in tumorigenicity and metastasis. Sema5A is
highly expressed in human pancreatic cancer cells and is
associated with tumor growth, invasion and metastasis.
Semaphorins are regulatory molecules involved in the
development of the nervous system and in axonal
guidance. They also play important roles in other
biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. 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 = 438
Score = 24.8 bits (54), Expect = 9.7
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 56 YEPTWHCIVGRNFGSFVTHESGNFLYFYLDKIAI 89
Y W + NF +E GN YF+ + A+
Sbjct: 160 YNSKW--LNEPNFVGS--YEIGNHTYFFFRENAV 189
>gnl|CDD|202251 pfam02475, Met_10, Met-10+ like-protein. The methionine-10 mutant
allele of N. crassa codes for a protein of unknown
function. However, homologous proteins have been found
in yeast suggesting this protein may be involved in
methionine biosynthesis, transport and/or utilisation.
Length = 199
Score = 24.6 bits (54), Expect = 9.8
Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
Query: 7 VHSKPTKIKASDMTVDMEKETIRFAQDAIAKYKVEKDI 44
HSK ++ A V++ E +++ ++ I KVE I
Sbjct: 120 KHSKAKRVYA----VELNPEAVKYLKENIKLNKVEGVI 153
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
0.319 0.132 0.384
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,877,135
Number of extensions: 394517
Number of successful extensions: 367
Number of sequences better than 10.0: 1
Number of HSP's gapped: 366
Number of HSP's successfully gapped: 30
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.2 bits)