RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= 537021.9.peg.1079_1
(251 letters)
>gnl|CDD|146059 pfam03237, Terminase_6, Terminase-like family. This family
represents a group of terminase proteins.
Length = 380
Score = 116 bits (293), Expect = 5e-27
Identities = 51/259 (19%), Positives = 91/259 (35%), Gaps = 21/259 (8%)
Query: 7 GRDKWQSNTVHYVWFDE--EPPEDVYFEGLTRINATQG-----LVTLTLTPLKGRSPIIE 59
++ ++ ++FDE P+ E + R+ AT+G + +P
Sbjct: 86 TAQGYRGASIAGIYFDEATWLPKFQESELVRRLRATKGKWRKTFFSTPPSPGHWVYDFWT 145
Query: 60 HYL---SASSSDRQVIRMTINETPHYNEQERKRIIDSYPLHEREARTKGEPILGSGRIFP 116
+L + + +TI + + ++ + Y E GE + SG IF
Sbjct: 146 GWLDDKGKRTFIPADVEVTIEDARALGPEYKEELRALYSDEEFARLLMGEWVDTSGSIFK 205
Query: 117 IVE-EDIVINSLDIPEHWVQIGGMDFG--WHHPFAAGHLVWNRDSDVIYVVKNYRCREQT 173
E E ++ PEH IGG+D +AA ++ D D YV+ R +
Sbjct: 206 RFELERCDVDEERPPEHREVIGGVDPAASRGGDYAALVVIAEVDGDKFYVLAREHERGLS 265
Query: 174 PIFHVAALKSWGK-WLPWAWPHDGLQHDKRSGEQLSAQYRRQGMKMLPECATFDDGSNGV 232
P A +K + + D + + L + + P G
Sbjct: 266 PAEQAAIIKKLAERYNVIYIYIDDTGGGESVAQLLRRELPGAAFTVRPA-------PKGK 318
Query: 233 EAGISDMLDRMRSGRWKVF 251
A + + D + SGR KV
Sbjct: 319 NARVLKVSDLIESGRLKVP 337
>gnl|CDD|35124 COG5565, COG5565, Bacteriophage terminase large (ATPase) subunit
and inactivated derivatives [General function
prediction only].
Length = 79
Score = 97.5 bits (242), Expect = 3e-21
Identities = 42/72 (58%), Positives = 56/72 (77%)
Query: 1 LKAYEQGRDKWQSNTVHYVWFDEEPPEDVYFEGLTRINATQGLVTLTLTPLKGRSPIIEH 60
K++EQGR+KWQ+ TV YVWFDE+PPEDVYFEG+TR N T G+ +T TPLKG S ++
Sbjct: 7 FKSFEQGREKWQARTVDYVWFDEQPPEDVYFEGITRTNRTSGITIVTFTPLKGMSRVVAR 66
Query: 61 YLSASSSDRQVI 72
+L+A++ DR V
Sbjct: 67 FLAANTPDRAVS 78
>gnl|CDD|34111 COG4408, COG4408, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 431
Score = 29.1 bits (65), Expect = 1.1
Identities = 17/77 (22%), Positives = 37/77 (48%), Gaps = 10/77 (12%)
Query: 2 KAYEQGRDKWQSNTVHYVWFDEEPPEDVYFEGLTRIN--ATQGLVTLTL-TPLKGRSPII 58
K Q WQ+ + V P D Y++ L +I A + ++ L +P G + ++
Sbjct: 77 KDLAQAVGDWQT-LILAV------PADAYYDVLQQIPWEALPQVKSVILISPTFGSNLLV 129
Query: 59 EHYLSASSSDRQVIRMT 75
++ ++ + D +VI ++
Sbjct: 130 QNLMNKAGRDAEVISLS 146
>gnl|CDD|37981 KOG2770, KOG2770, KOG2770, Aminomethyl transferase [Amino acid
transport and metabolism].
Length = 401
Score = 28.8 bits (64), Expect = 1.6
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 152 LVWNRDSDVIYVVKNYRCREQ-TPIF--HVAALKSWGKWLPW 190
++ D + +Y+V N C+E+ + H A KS GK + W
Sbjct: 124 IITKVDENELYIVSNAGCQEKDEALLKDHFFAWKSKGKDVSW 165
>gnl|CDD|33935 COG4200, COG4200, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 239
Score = 27.9 bits (62), Expect = 2.7
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 174 PIFHVAALKSWGKWLPWAWP 193
P VA+ +S WLPWA P
Sbjct: 177 PALFVASAESLPVWLPWASP 196
>gnl|CDD|132979 cd06648, STKc_PAK_II, Catalytic domain of the Protein
Serine/Threonine Kinase, Group II p21-activated kinase.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) subfamily, Group II, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PAK 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. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
Group II PAKs, also called non-conventional PAKs,
include PAK4, PAK5, and PAK6. Group II PAKs contain PBD
(p21-binding domain) and catalytic domains, but lack
other motifs found in group I PAKs, such as an AID
(autoinhibitory domain) and SH3 binding sites. Since
group II PAKs do not contain an obvious AID, they may be
regulated differently from group I PAKs. While group I
PAKs interact with the SH3 containing proteins Nck, Grb2
and PIX, no such binding has been demonstrated for group
II PAKs. Some known substrates of group II PAKs are also
substrates of group I PAKs such as Raf, BAD, LIMK and
GEFH1. Unique group II substrates include MARK/Par-1 and
PDZ-RhoGEF. Group II PAKs play important roles in
filopodia formation, neuron extension, cytoskeletal
organization, and cell survival.
Length = 285
Score = 27.8 bits (62), Expect = 3.0
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 71 VIRMTINETPHYNE---QERKRIIDSYPLHEREARTKGEPILGS 111
VI M E P++NE Q KRI D+ P + K P L S
Sbjct: 205 VIEMVDGEPPYFNEPPLQAMKRIRDNLPPKLKNLH-KVSPRLRS 247
>gnl|CDD|111768 pfam02917, Pertussis_S1, Pertussis toxin, subunit 1.
Length = 239
Score = 26.3 bits (57), Expect = 7.6
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 1/74 (1%)
Query: 14 NTVHYVW-FDEEPPEDVYFEGLTRINATQGLVTLTLTPLKGRSPIIEHYLSASSSDRQVI 72
+ +V+ D PPED++ G + + L+ GRS I SA ++ R
Sbjct: 1 DPPAFVYRVDLRPPEDIFEHGFSALGDNDNFFEHILSTNFGRSCFIGSSESAFAAIRFFG 60
Query: 73 RMTINETPHYNEQE 86
R + Q
Sbjct: 61 RWLREVVLEHPMQA 74
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.137 0.444
Gapped
Lambda K H
0.267 0.0716 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,370,201
Number of extensions: 175947
Number of successful extensions: 371
Number of sequences better than 10.0: 1
Number of HSP's gapped: 368
Number of HSP's successfully gapped: 10
Length of query: 251
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 160
Effective length of database: 4,297,318
Effective search space: 687570880
Effective search space used: 687570880
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: 56 (25.4 bits)