RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9871
(340 letters)
>gnl|CDD|222437 pfam13890, Rab3-GTPase_cat, Rab3 GTPase-activating protein
catalytic subunit. This family is the probable
catalytic subunit of the GTPase activating protein that
has specificity for Rab3 subfamily (RAB3A, RAB3B, RAB3C
and RAB3D). It is likely to convert active Rab3-GTP to
the inactive form Rab3-GDP. Rab3 proteins are involved
in regulated exocytosis of neurotransmitters and
hormones. The Rab3 GTPase-activating complex is a
heterodimer composed of RAB3GAP and RAB3-GAP150. This
complex interacts with DMXL2.
Length = 165
Score = 185 bits (473), Expect = 2e-58
Identities = 74/126 (58%), Positives = 88/126 (69%), Gaps = 2/126 (1%)
Query: 20 VIKTEDQIEEDAEFLLSLGTDLESSQLRAKLMSASLLSDMESFKAANPGAILEDFIRWYS 79
TED +EE AE LL LG E S LRA+L S SLLSDM +FKAANPGA+ EDF+RWYS
Sbjct: 39 PPMTEDMLEERAEALLKLGDSEEGSHLRARLQSDSLLSDMSAFKAANPGAVFEDFVRWYS 98
Query: 80 PRDFIESSELDQYGQK--KGSLSARMLLPGNTWREVWEAAKPVPARRQRRLFNDTKEAEK 137
PRD+IE D+ G +G LS RM + GN W E+WE A P+PAR Q+ LF+ TKEAEK
Sbjct: 99 PRDWIEEEVTDETGSDADRGYLSERMRIEGNVWWELWERAPPLPAREQKPLFDPTKEAEK 158
Query: 138 ILHLFE 143
+LH E
Sbjct: 159 VLHYLE 164
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional.
Length = 813
Score = 30.5 bits (69), Expect = 1.4
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 287 SPLPSPACREFILRVVAPRPAPSSR 311
+P+PS REFIL + R P+SR
Sbjct: 16 NPIPS---REFILEHLTKREKPASR 37
>gnl|CDD|185434 PTZ00083, PTZ00083, 40S ribosomal protein S27; Provisional.
Length = 85
Score = 28.1 bits (63), Expect = 1.7
Identities = 14/39 (35%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 305 RPAPSSRPTPHKLTALIMAPDSLIMS----GCFTQDTMF 339
P P S HKL L+ P+S M GC T+F
Sbjct: 10 YPDPESEARKHKLKRLVQGPNSYFMDVKCPGCSQITTVF 48
>gnl|CDD|165774 PLN00209, PLN00209, ribosomal protein S27; Provisional.
Length = 86
Score = 27.5 bits (61), Expect = 3.0
Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 306 PAPSSRPTPHKLTALIMAPDSLIM----SGCFTQDTMF 339
P HKL L+ +P+S M GCF T+F
Sbjct: 12 PPAELEKRKHKLKRLVQSPNSFFMDVKCQGCFNITTVF 49
>gnl|CDD|227447 COG5117, NOC3, Protein involved in the nuclear export of
pre-ribosomes [Translation, ribosomal structure and
biogenesis / Intracellular trafficking and secretion].
Length = 657
Score = 29.2 bits (65), Expect = 4.1
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 111 REVWEAAKPVPARRQRRLFNDTKEAEKI 138
R+ WEA KPV R ++ +F+ +K+ KI
Sbjct: 347 RKYWEANKPVSKREKKDIFHLSKKLRKI 374
>gnl|CDD|140276 PTZ00249, PTZ00249, variable surface protein Vir28; Provisional.
Length = 516
Score = 28.8 bits (64), Expect = 5.0
Identities = 30/101 (29%), Positives = 41/101 (40%), Gaps = 13/101 (12%)
Query: 80 PRDFIESSELDQYGQKKGSLSARMLLPGNTWREVWEAAKPVPARRQRRLFNDTKEAEKIL 139
P + ES E D+Y KG + P E+ E + + F E E+
Sbjct: 350 PLESSESEETDEYAGPKG-----LPEPELELVELQEEDQRHGLKHDVDTFR---EDEEDT 401
Query: 140 HLFECQSP-GSVAVLL----VPALIHGAVSRLLEAIHSVPV 175
L E P GS+ + I GAVS +LEA+ VPV
Sbjct: 402 FLQEGDQPAGSMQSTFDTGTIMGTIKGAVSNVLEAVEPVPV 442
>gnl|CDD|179460 PRK02693, PRK02693, apocytochrome f; Reviewed.
Length = 312
Score = 28.4 bits (64), Expect = 5.4
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 14/86 (16%)
Query: 233 DASTQQFLAD---LVMNPSSIIQVPEGPHGVIGKRMSQMFYEAQKDT-DVWKLPASP--- 285
D QQ AD + +N +++ +P+G R ++ E +++T V+ P S
Sbjct: 82 DTDVQQVGADGSKVGLNVGAVVMLPDGFKLAPQDRWTE---EIKEETEGVYFTPYSEDQE 138
Query: 286 ----FSPLPSPACREFILRVVAPRPA 307
PLP +E + V++P PA
Sbjct: 139 NIILVGPLPGDQYQEIVFPVLSPDPA 164
>gnl|CDD|99803 cd06207, CyPoR_like, NADPH cytochrome p450 reductase (CYPOR) serves
as an electron donor in several oxygenase systems and is
a component of nitric oxide synthases and methionine
synthase reductases. CYPOR transfers two electrons from
NADPH to the heme of cytochrome p450 via FAD and FMN.
Ferredoxin-NADP+ (oxido)reductase is an FAD-containing
enzyme that catalyzes the reversible electron transfer
between NADP(H) and electron carrier proteins such as
ferredoxin and flavodoxin. Isoforms of these
flavoproteins (i.e. having a non-covalently bound FAD as
a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 382
Score = 28.0 bits (63), Expect = 7.4
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 229 PDNNDASTQQFLADLVMNPSSIIQVP 254
P+N+DA +FLA L ++ +++V
Sbjct: 41 PENSDALVDEFLARLGLDGDDVVRVE 66
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 0.133 0.391
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,476,475
Number of extensions: 1686761
Number of successful extensions: 1505
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1503
Number of HSP's successfully gapped: 20
Length of query: 340
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 242
Effective length of database: 6,590,910
Effective search space: 1595000220
Effective search space used: 1595000220
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: 59 (26.5 bits)