RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy964
(154 letters)
>gnl|CDD|236989 PRK11809, putA, trifunctional transcriptional regulator/proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1318
Score = 28.0 bits (63), Expect = 2.6
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 29 GIEGYPTYKEKIY 41
G+EGYP Y K+Y
Sbjct: 449 GLEGYPVYTRKVY 461
>gnl|CDD|238870 cd01832, SGNH_hydrolase_like_1, Members of the SGNH-hydrolase
superfamily, a diverse family of lipases and esterases.
The tertiary fold of the enzyme is substantially
different from that of the alpha/beta hydrolase family
and unique among all known hydrolases; its active site
closely resembles the Ser-His-Asp(Glu) triad from other
serine hydrolases, but may lack the carboxlic acid.
Myxobacterial members of this subfamily have been
reported to be involved in adventurous gliding motility.
Length = 185
Score = 27.2 bits (61), Expect = 2.9
Identities = 8/35 (22%), Positives = 13/35 (37%), Gaps = 4/35 (11%)
Query: 119 RHVDFQA----TLPLDWISDNIEFNLRGYKFITEI 149
HVD P W SD + + G+ + +
Sbjct: 147 VHVDLWEHPEFADPRLWASDRLHPSAAGHARLAAL 181
>gnl|CDD|240241 PTZ00045, PTZ00045, apical membrane antigen 1; Provisional.
Length = 595
Score = 27.6 bits (61), Expect = 3.1
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 112 EKEEAKSRHVDFQATLPLDWISDNIEFNLRGYKF 145
+K + + + +P DW S LR F
Sbjct: 275 DKSKEDNHLLYGSKNVPDDWESKCPRKPLRNAIF 308
>gnl|CDD|212123 cd10812, GH38N_AMII_ScAms1_like, N-terminal catalytic domain of
yeast vacuolar alpha-mannosidases and similar proteins;
glycoside hydrolase family 38 (GH38). The family is
represented by Saccharomyces cerevisiae
alpha-mannosidase (Ams1) and its eukaryotic homologs.
Ams1 functions as a second resident vacuolar hydrolase
in S. cerevisiae. It aids in recycling macromolecular
components of the cell through hydrolysis of terminal,
non-reducing alpha-d-mannose residues. Ams1 forms an
oligomer in the cytoplasm and retains its oligomeric
form during the import process. It utilizes both the
Cvt (nutrient-rich conditions) and autophagic
(starvation conditions) pathways for biosynthetic
delivery to the vacuole. Mutants in either pathway are
defective in Ams1 import. Members in this family show
high sequence similarity with rat ER/cytosolic
alpha-mannosidase Man2C1.
Length = 258
Score = 27.4 bits (61), Expect = 3.2
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 33 YPTYKEKIYRSTSTTMYRFFKYIENRDVAKQVMKERGLKKIRLGIEGYPTYKEKVK 88
+ ++K+ RS ST +Y E R VA Q + + L+ + YP EKVK
Sbjct: 18 FSETQQKVARSWSTQCDLMDRYPEYRFVASQAQQFKWLETL------YPDLFEKVK 67
>gnl|CDD|215704 pfam00085, Thioredoxin, Thioredoxin. Thioredoxins are small
enzymes that participate in redox reactions, via the
reversible oxidation of an active centre disulfide bond.
Some members with only the active site are not separated
from the noise.
Length = 104
Score = 26.0 bits (58), Expect = 4.2
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 17/55 (30%)
Query: 56 ENRDVAKQVMKERGLKKIRLGIEGYPTYK-----EKVKKRAGGRS-DVIYNYVQR 104
EN D+A + G+ G+PT K +KV G R+ D + ++++
Sbjct: 60 ENPDLASE-----------YGVRGFPTIKFFKNGKKVSDYVGARTKDDLVAFIKK 103
>gnl|CDD|239325 cd03027, GRX_DEP, Glutaredoxin (GRX) family, Dishevelled, Egl-10,
and Pleckstrin (DEP) subfamily; composed of
uncharacterized proteins containing a GRX domain and
additional domains DEP and DUF547, both of which have
unknown functions. GRX is a glutathione (GSH)
dependent reductase containing a redox active CXXC
motif in a TRX fold. It has preference for mixed GSH
disulfide substrates, in which it uses a monothiol
mechanism where only the N-terminal cysteine is
required. By altering the redox state of target
proteins, GRX is involved in many cellular functions.
Length = 73
Score = 25.4 bits (56), Expect = 5.3
Identities = 9/45 (20%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 51 FFKYIENRDVA--KQVMKERGLKKIRLGIEGYPTYKEKVKKRAGG 93
+ + D + ++E+GL + + I+ +P K ++++R G
Sbjct: 5 IYSRLGCEDCTAVRLFLREKGLPYVEINIDIFPERKAELEERTGS 49
>gnl|CDD|187887 cd09757, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Zn-finger domain containing protein, distant homologs of
Cas8 proteins; signature gene for I-C subtype; also
known as Csd1 family.
Length = 569
Score = 26.8 bits (60), Expect = 6.0
Identities = 14/68 (20%), Positives = 23/68 (33%), Gaps = 11/68 (16%)
Query: 28 LGIEGYPTYKEKIYRSTSTTMYRFFKYIEN---------RDVAKQVMKERGLKKI--RLG 76
LG T ++ Y + S T F + R + V ER + +I L
Sbjct: 481 LGGGINATIADRYYGAASATPASVFPTLLRLLQPHLAKLRKEKRAVNLERLIGEILDGLN 540
Query: 77 IEGYPTYK 84
+ +P
Sbjct: 541 PDDFPRTL 548
>gnl|CDD|239510 cd03418, GRX_GRXb_1_3_like, Glutaredoxin (GRX) family, GRX
bacterial class 1 and 3 (b_1_3)-like subfamily;
composed of bacterial GRXs, approximately 10 kDa in
size, and proteins containing a GRX or GRX-like domain.
GRX is a glutathione (GSH) dependent reductase,
catalyzing the disulfide reduction of target proteins
such as ribonucleotide reductase. It contains a redox
active CXXC motif in a TRX fold and uses a similar
dithiol mechanism employed by TRXs for intramolecular
disulfide bond reduction of protein substrates. Unlike
TRX, GRX has preference for mixed GSH disulfide
substrates, in which it uses a monothiol mechanism
where only the N-terminal cysteine is required. The
flow of reducing equivalents in the GRX system goes
from NADPH -> GSH reductase -> GSH -> GRX -> protein
substrates. By altering the redox state of target
proteins, GRX is involved in many cellular functions
including DNA synthesis, signal transduction and the
defense against oxidative stress. Different classes are
known including E. coli GRX1 and GRX3, which are
members of this subfamily.
Length = 75
Score = 25.2 bits (56), Expect = 6.3
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 61 AKQVMKERGLKKIRLGIEGYPTYKEKVKKRAGGRSDV 97
AK ++ ++G+ + ++G P +E++ R+GGR V
Sbjct: 16 AKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRTV 52
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 26.4 bits (58), Expect = 8.3
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 62 KQVMKERGLKKIRLGIEGYPTYKEKVKKRAGGRSDVIYN 100
K MKE+ LK L + + Y E ++ +AG V+YN
Sbjct: 461 KAEMKEKTLKMFLLS-QKHIVYTEPLEVQAGTTVTVLYN 498
>gnl|CDD|211667 TIGR01530, nadN, NAD pyrophosphatase/5'-nucleotidase NadN. This
model describes NadN of Haemophilus influenzae and a
small number of close homologs in pathogenic,
Gram-negative bacteria. NadN is a periplasmic enzyme
that cleaves NAD (nicotinamide adenine dinucleotide) to
NMN (nicotinamide mononucleotide) and AMP. The NMN must
be converted by a 5'-nucleotidase to nicotinamide
riboside for import. NadN belongs a large family of
5'-nucleotidases and has NMN 5'-nucleotidase activity
for NMN, AMP, etc [Transport and binding proteins,
Other, Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridine nucleotides].
Length = 545
Score = 26.1 bits (57), Expect = 8.8
Identities = 11/49 (22%), Positives = 23/49 (46%)
Query: 27 RLGIEGYPTYKEKIYRSTSTTMYRFFKYIENRDVAKQVMKERGLKKIRL 75
++ I G T + + S+ +F+ I + +K++G+ KI L
Sbjct: 140 KIAIIGLDTVNKTVNSSSPGKDVKFYDEIATAQIMANALKQQGINKIIL 188
>gnl|CDD|238680 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI
myosin, involved in organelle transport. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 674
Score = 26.2 bits (58), Expect = 9.4
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 9 ENRDVAKQVMKERGLKKIRLGIEGYPTYKEKIYRSTSTTMYRFFKYIENRDVAKQVMKER 68
EN +V +Q+ L+ IR+ GYPT R T F + + +
Sbjct: 582 ENENVLQQLRCGGVLEAIRISCAGYPT------RRTFDEFLDRFGILAPEVLKGSSDDKA 635
Query: 69 GLKKI--RLGIEGYPTYKEKVKKRAG 92
KKI ++G++GY K KV RAG
Sbjct: 636 ACKKILDKMGLKGYQIGKTKVFLRAG 661
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
0.322 0.139 0.407
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,097,218
Number of extensions: 735220
Number of successful extensions: 755
Number of sequences better than 10.0: 1
Number of HSP's gapped: 755
Number of HSP's successfully gapped: 29
Length of query: 154
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 65
Effective length of database: 6,990,096
Effective search space: 454356240
Effective search space used: 454356240
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 (21.9 bits)
S2: 55 (25.0 bits)