RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9690
(111 letters)
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 33.0 bits (76), Expect = 0.018
Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 13/78 (16%)
Query: 25 EEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEI-KELPDWMVKDDDE 83
E E+ ++ T ++LI ++EL +K + L E+ K+ + ++ +
Sbjct: 201 GFERLELEEEGTPSELIREIKEELEEIEK-----ERESLLEELKELAKKYLEELLALYEY 255
Query: 84 VENSMYEEEREREKEEAL 101
+E E E+ EAL
Sbjct: 256 LEI-------ELERAEAL 266
>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi. This family includes
the fifth essential DNA polymerase in yeast EC:2.7.7.7.
Pol5p is localised exclusively to the nucleolus and
binds near or at the enhancer region of rRNA-encoding
DNA repeating units.
Length = 784
Score = 30.6 bits (69), Expect = 0.15
Identities = 26/100 (26%), Positives = 41/100 (41%), Gaps = 10/100 (10%)
Query: 2 FDQKSTGSERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKG 61
Q G E E + DD+E+E + D E+ ++ +E Q+ DAE +G
Sbjct: 641 HQQLFEGEE--EDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDE--QEDDAEANEG 696
Query: 62 ETKPR------LVEIKELPDWMVKDDDEVENSMYEEERER 95
L ++ LPD + D E E M +E+ R
Sbjct: 697 VVPIDKAVRRALPKVLNLPDALDGGDSEDEEGMDDEQMMR 736
>gnl|CDD|217920 pfam04137, ERO1, Endoplasmic Reticulum Oxidoreductin 1 (ERO1).
Members of this family are required for the formation of
disulphide bonds in the ER.
Length = 348
Score = 30.4 bits (69), Expect = 0.16
Identities = 13/66 (19%), Positives = 29/66 (43%)
Query: 24 EEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETKPRLVEIKELPDWMVKDDDE 83
+E+E+P+ ++L E F ++D + + +L D+ V DD++
Sbjct: 45 CTCDESEIPEVWKPSELEGSACKEGKDFGELDCSLSDCRASCKWKDTDDLDDYCVVDDED 104
Query: 84 VENSMY 89
+ +Y
Sbjct: 105 SDKGVY 110
>gnl|CDD|219355 pfam07267, Nucleo_P87, Nucleopolyhedrovirus capsid protein P87.
This family consists of several Nucleopolyhedrovirus
capsid protein P87 sequences. P87 is expressed late in
infection and concentrated in infected cell nuclei.
Length = 606
Score = 27.9 bits (62), Expect = 1.0
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 57 ERRKGETKPRLVEIKELPDWMVKDDDEVENSMYEEEREREKEE 99
+RK P L E D +DD + + YE+ER+R +EE
Sbjct: 356 RKRKRRRVPPLPEYSSDED---EDDSDEDEVDYEKERKRRREE 395
>gnl|CDD|215140 PLN02251, PLN02251, pyrophosphate-dependent phosphofructokinase.
Length = 568
Score = 27.4 bits (61), Expect = 1.5
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 13/45 (28%)
Query: 50 LFQKMDAERRKGETKP----RLVEIKELP---------DWMVKDD 81
L MD ERR G+ KP +VE++ P +W +K+
Sbjct: 495 LTSLMDVERRHGKFKPVIKKAMVELEGAPFKKFASLRDEWALKNR 539
>gnl|CDD|165700 PLN00131, PLN00131, hypothetical protein; Provisional.
Length = 218
Score = 26.5 bits (58), Expect = 3.2
Identities = 27/103 (26%), Positives = 45/103 (43%), Gaps = 17/103 (16%)
Query: 1 MFDQKSTGSERHEFLQTILHQDDEEEEENEVP-DDETVNQLIARTEDELTLFQKMDAERR 59
+ D ST + Q H E+E E P DD+ + R +EL L ++ A +R
Sbjct: 97 VLDLNSTPQPELDLNQPAAH---EQEPEPAPPLDDQDLLTKRKRVSEELRLLLQIGAVKR 153
Query: 60 KGETKPRLVEIKELPDWMVKDD-------DEVENSMYEEERER 95
K + +L+ DWM D+ D++ N +Y+ E+
Sbjct: 154 KNKIADQLL------DWMGLDNETDRTLLDDLYNHLYDLSEEQ 190
>gnl|CDD|233046 TIGR00603, rad25, DNA repair helicase rad25. All proteins in this
family for which functions are known are DNA-DNA
helicases used for the initiation of nucleotide excision
repair and transacription as part of the TFIIH
complex.This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 732
Score = 26.3 bits (58), Expect = 4.2
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 6 STGSERHEFLQTILHQDDEEEEENEVPDD 34
S+ E+ E LQ +L D + E + +
Sbjct: 646 SSKEEQLELLQKVLLAGDLDAELEVLEGE 674
>gnl|CDD|223266 COG0188, GyrA, Type IIA topoisomerase (DNA gyrase/topo II,
topoisomerase IV), A subunit [DNA replication,
recombination, and repair].
Length = 804
Score = 26.1 bits (58), Expect = 4.7
Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 4 QKSTGSERHEFLQTILHQDDEEEEENEVPDDETVNQLIARTEDELTLFQKMDAERRKGET 63
++ TG E + + + +E E E+ + +++A E L + +K E +K
Sbjct: 429 RRLTGLEEEK------IEKELKELEKEI---ADLEKILASEERLLDIIKKELLEIKKKFG 479
Query: 64 KPRLVEIKELPDWMVKDDDEVEN 86
R EI E + ++D+D +
Sbjct: 480 DERRTEIVEEEEDEIEDEDLIAE 502
>gnl|CDD|213349 cd12789, RasGAP_plexin_C1, Ras-GTPase Activating Domain of
plexin-C1. Plexins form a conserved family of
transmembrane receptors for semaphorins and may be the
ancestors of semaphorins. Plexins are divided into four
types (A-D) according to sequence similarity. Plexin-C1
has been identified as the receptor of semaphorin 7A,
which plays regulatory roles in both the immune and
nervous systems. Unlike other semaphorins which act as
repulsive guidance cues, Sema7A enhances central and
peripheral axon growth and is required for proper axon
tract formation during embryonic development. Plexin-C1
is a potential tumor suppressor for melanoma
progression. The expression of Plexin-C1 is diminished
or absent in human melanoma cell lines. Cofilin, an
actin-binding protein involved in cell migration, is a
downstream target of Sema7A and Plexin-C1 signaling.
Melanoma invasion and metastasis may be promoted through
the loss of Plexin-C1 inhibitory signaling on cofilin
activation. Plexins contain a C-terminal RasGAP domain,
which functions as an enhancer of the hydrolysis of GTP
that is bound to Ras-GTPases. Plexins display GAP
activity towards the Ras homolog Rap. Although the Rho
(Ras homolog) GTPases are most closely related to
members of the Ras family, RhoGAP and RasGAP show no
sequence homology at their amino acid level. RasGTPases
function as molecular switches in a large number of of
signaling pathways. When bound to GTP they are in the on
state and when bound to GDP they are in the off state.
The RasGAP domain speeds up the hydrolysis of GTP in
Ras-like proteins acting as a negative regulator.
Length = 393
Score = 26.0 bits (57), Expect = 5.8
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 10/76 (13%)
Query: 7 TGSERHEFLQTILHQDDEEEEENEVPDDETVNQL---IARTEDELTLFQKMDAERRKGET 63
+ SE EFL + ++ ENE ++ + ++ I + DE+ K++ ER E
Sbjct: 322 SSSELEEFLT-----QESKKHENEFNEEVALMEIYKYIVKYFDEI--LNKLERERGLEEV 374
Query: 64 KPRLVEIKELPDWMVK 79
+ +L+ +K L D K
Sbjct: 375 QKQLLHVKALFDEKKK 390
>gnl|CDD|215308 PLN02568, PLN02568, polyamine oxidase.
Length = 539
Score = 25.9 bits (57), Expect = 6.1
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 3 DQKSTGSERHEFLQTILHQDDEEEEENEVP 32
D + FLQ H+ D E +++P
Sbjct: 340 DGSPEDVAKFPFLQMAFHRSDSEARHDKIP 369
>gnl|CDD|240444 cd13441, CamS_repeat_1, N-terminal repeat domain of CamS sex
pheromone cAM373 precursor. This family includes CamS,
from which Staphylococcus aureus sex pheromone
staph-cAM373 is processed. The protein contains two
structurally similar repeats in a tandem arrangement.
The heptapeptide cAM373 is a Streptococcus faecalis
pheromone, secreted by recipient cells, which induces a
mating response in donor cells that contain particular
conjugative plasmids. cAM373 is also excreted by
Staphylococcus aureus. The family also contains sex
hormone precursors from other bacteria.
Length = 204
Score = 25.6 bits (57), Expect = 6.1
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 7/64 (10%)
Query: 28 ENEVPDDETVNQLIARTEDELTLFQKMDAERRKGETK-----PR-LVEIKELPDWMVKDD 81
E + +T+N + R + + +G + P L I E D++VK+
Sbjct: 48 EGQYLSKDTINSWLKRKSKDNPEGLNPEDNLEEGGKEKNKKNPIYLSHILEQ-DYLVKNG 106
Query: 82 DEVE 85
D+ +
Sbjct: 107 DKYK 110
>gnl|CDD|165442 PHA03171, PHA03171, UL37 tegument protein; Provisional.
Length = 499
Score = 25.0 bits (54), Expect = 9.8
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 78 VKDDDEVENSMYEEEREREKEE 99
++D++ E E E E E+EE
Sbjct: 87 EEEDNDRECPDTEAEEEDEEEE 108
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
0.307 0.127 0.341
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,865,172
Number of extensions: 534855
Number of successful extensions: 769
Number of sequences better than 10.0: 1
Number of HSP's gapped: 731
Number of HSP's successfully gapped: 125
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 53 (24.1 bits)