RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17980
(252 letters)
>gnl|CDD|193257 pfam12781, AAA_9, ATP-binding dynein motor region D5. The 380 kDa
motor unit of dynein belongs to the AAA class of
chaperone-like ATPases. The core of the 380 kDa motor
unit contains a concatenated chain of six AAA modules,
of which four correspond to the ATP binding sites with
P-loop signatures described previously, and two are
modules in which the P loop has been lost in evolution.
This particular family is the D5 ATP-binding region of
the motor, but has lost its P-loop.
Length = 228
Score = 113 bits (284), Expect = 8e-31
Identities = 55/100 (55%), Positives = 70/100 (70%)
Query: 152 IKLGDTVVDYDPKFRLYLTTKLPNPHYLPETCIQIGLINFTVTSSGLEEQLMADVVRLER 211
IK+GD V+Y+PKFRL L TKL NPHY PE Q LINFTVT GLE+QL+A VV ER
Sbjct: 109 IKIGDKEVEYNPKFRLILHTKLANPHYKPEMQAQCTLINFTVTRDGLEDQLLAAVVAKER 168
Query: 212 PDLEQERNQVIVTMNKDKSMLKEIEDNILRLLFTSEGEIL 251
PDLEQ ++ + N+ K +LKE+ED++L L ++ G L
Sbjct: 169 PDLEQLKSDLTKQQNEFKIVLKELEDSLLSRLSSASGNFL 208
Score = 46.5 bits (110), Expect = 3e-06
Identities = 16/51 (31%), Positives = 32/51 (62%)
Query: 7 LKILKLTDSTYMRTMEACVRLGLPVLLEDVGETLDPALGPILLKQTYTKGK 57
L+++++ Y+ +E + G VL+E++ E++DP L P+L + T KG+
Sbjct: 57 LRVIRIGQKGYLDVIEQAISEGDTVLIENIEESIDPVLDPLLGRNTIKKGR 107
>gnl|CDD|178036 PLN02415, PLN02415, uricase.
Length = 304
Score = 29.4 bits (66), Expect = 1.5
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 140 NFFYPPSGG-------RTLIKLGDTVVDYDPKFRLYLTTKLPNPHYLP 180
FF PP G TL ++ V++ P + +PN H+LP
Sbjct: 217 TFFGPPKSGVYSPSVQYTLYQMAKAVLNRFPDIS-SIQLNMPNLHFLP 263
>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 = 29.6 bits (66), Expect = 2.0
Identities = 12/53 (22%), Positives = 23/53 (43%)
Query: 5 NGLKILKLTDSTYMRTMEACVRLGLPVLLEDVGETLDPALGPILLKQTYTKGK 57
N + ++ DS Y+ + L LPV+ E E +P P+ + + +
Sbjct: 205 NDIDVIVTGDSHYLYGNDELRSLKLPVIYEYPLEFKNPNGEPVFVMEGWAYSA 257
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 28.8 bits (64), Expect = 3.4
Identities = 10/67 (14%), Positives = 20/67 (29%)
Query: 185 QIGLINFTVTSSGLEEQLMADVVRLERPDLEQERNQVIVTMNKDKSMLKEIEDNILRLLF 244
Q+ + F G E ++ + +L L + L + +L L
Sbjct: 2591 QLIQVMFVSKVLGCETEIPDALEKLVSGPLFVHEKALNALKACGSLFLWVLARYLLAKLM 2650
Query: 245 TSEGEIL 251
S +
Sbjct: 2651 LSISNME 2657
>gnl|CDD|236485 PRK09368, PRK09368, gas vesicle synthesis-like protein; Reviewed.
Length = 140
Score = 27.7 bits (62), Expect = 4.0
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 16/50 (32%)
Query: 6 GLKILKL-------TDSTYMRTMEACVRL---------GLPVLLEDVGET 39
G++IL + + TY+R EAC RL GLP L+ +V E+
Sbjct: 41 GIEILTIDARVVVASVDTYLRFAEACNRLDLESREQSSGLPGLVGEVTES 90
>gnl|CDD|165553 PHA03296, PHA03296, envelope glycoprotein H; Provisional.
Length = 814
Score = 28.5 bits (63), Expect = 4.9
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 9/37 (24%)
Query: 111 TRYCALSEGGHI---------LFSLCTSGPHSPPMNL 138
TRY +++ G I + SLC + P SPP+ +
Sbjct: 191 TRYISIALSGDIDIKINIGKNVASLCIASPASPPIEM 227
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 27.2 bits (61), Expect = 7.3
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 7/39 (17%)
Query: 117 SEGGHILFSLCTSGPHSPPMNLTNFFYPPSGGRTLIKLG 155
SE HIL +L SPP+NL ++ P T+ K G
Sbjct: 139 SENPHIL-TL------SPPLNLDPKWFAPHTAYTMAKYG 170
>gnl|CDD|177649 PLN00009, PLN00009, cyclin-dependent kinase A; Provisional.
Length = 294
Score = 27.5 bits (61), Expect = 7.6
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 205 DVVRLERPDLEQERNQVIVTMNKDKSMLKEIE-DNILRL 242
+ + L++ LEQE V T ++ S+LKE++ NI+RL
Sbjct: 28 ETIALKKIRLEQEDEGVPSTAIREISLLKEMQHGNIVRL 66
>gnl|CDD|150740 pfam10100, DUF2338, Uncharacterized protein conserved in bacteria
(DUF2338). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 429
Score = 27.4 bits (61), Expect = 8.0
Identities = 16/83 (19%), Positives = 29/83 (34%), Gaps = 12/83 (14%)
Query: 63 YADQAYIHGMVFTNRACKMTKGFLSVCFLSEIKIWTRNSHHGSLFYDETRYCALSEGGHI 122
Y D +I +T K++ ++H GS R CA+ I
Sbjct: 147 YGDTRWIDD---EQPNRVLTTAVKK-------KLYLGSTHSGSAELS--RLCAVFAQLGI 194
Query: 123 LFSLCTSGPHSPPMNLTNFFYPP 145
+ S + N++ + +PP
Sbjct: 195 ELTPMESPLAAETRNISLYVHPP 217
>gnl|CDD|173738 cd07835, STKc_CDK1_like, Catalytic domain of Cyclin-Dependent
protein Kinase 1-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 1 (CDK1)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK1 subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. CDKs belong to a
large family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDK1 from higher
eukaryotes, plants, and yeasts, as well as CDK2 and
CDK3. CDK1 is also called Cell division control protein
2 (Cdc2) or p34 protein kinase, and is regulated by
cyclins A, B, and E. The CDK1/cyclin A complex controls
G2 phase entry and progression while the CDK1/cyclin B
complex is critical for G2 to M phase transition. CDK2
is regulated by cyclin E or cyclin A. Upon activation by
cyclin E, it phosphorylates the retinoblastoma (pRb)
protein which activates E2F mediated transcription and
allows cells to move into S phase. The CDK2/cyclin A
complex plays a role in regulating DNA replication.
Studies in knockout mice revealed that CDK1 can
compensate for the loss of the cdk2 gene as it can also
bind cyclin E and drive G1 to S phase transition. CDK3
is regulated by cyclin C and it phosphorylates pRB
specifically during the G0/G1 transition. This
phosphorylation is required for cells to exit G0
efficiently and enter the G1 phase.
Length = 283
Score = 27.3 bits (61), Expect = 8.3
Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 205 DVVRLERPDLEQERNQVIVTMNKDKSMLKEI-EDNILRLL 243
++V L++ LE E V T ++ S+LKE+ NI+RLL
Sbjct: 25 EIVALKKIRLETEDEGVPSTAIREISLLKELNHPNIVRLL 64
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
0.320 0.138 0.412
Gapped
Lambda K H
0.267 0.0565 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,914,454
Number of extensions: 1224978
Number of successful extensions: 1011
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1011
Number of HSP's successfully gapped: 16
Length of query: 252
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 157
Effective length of database: 6,723,972
Effective search space: 1055663604
Effective search space used: 1055663604
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: 58 (26.5 bits)