RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9638
(85 letters)
>gnl|CDD|148662 pfam07189, SF3b10, Splicing factor 3B subunit 10 (SF3b10). This
family consists of several eukaryotic splicing factor
3B subunit 10 (SF3b10) proteins. SF3b10 is a 10 kDa
subunit of the splicing factor SF3b. SF3b associates
with the splicing factor SF3a and a 12S RNA unit to
form the U2 small nuclear ribonucleoproteins complex.
SF3b10 and SF3b14b are also thought to facilitate the
interaction of U2 with the branch site.
Length = 79
Score = 145 bits (369), Expect = 1e-47
Identities = 57/79 (72%), Positives = 67/79 (84%)
Query: 3 DRYNIYSQLEHLQSKYVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKA 62
DR I QLEHLQSKY+GTGHADTTK+EWL NIHRD+YASY+GH + L F+I ENE KA
Sbjct: 1 DRLRIQQQLEHLQSKYIGTGHADTTKWEWLTNIHRDTYASYIGHPSRLAYFAIAENEPKA 60
Query: 63 RVRFNFMERMLQPCGPPPE 81
RVR+N +E+MLQPCGPPP+
Sbjct: 61 RVRYNMLEKMLQPCGPPPK 79
>gnl|CDD|182175 PRK09971, PRK09971, xanthine dehydrogenase subunit XdhB;
Provisional.
Length = 291
Score = 26.5 bits (59), Expect = 1.5
Identities = 10/32 (31%), Positives = 11/32 (34%), Gaps = 2/32 (6%)
Query: 18 YVGTGHADTTKFEWLVN--IHRDSYASYMGHY 47
Y G G E LV I + Y G Y
Sbjct: 152 YTGPGKVSLEHDEILVAFIIPPEPYEHAGGAY 183
>gnl|CDD|215525 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 26.4 bits (58), Expect = 1.7
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 49 MLNLFSINENEAKARVRFNFMERMLQPCGPPPEK 82
+L+ I E K R ++ ML+ CG PPEK
Sbjct: 467 LLDELDIGTYEVKLNHR-KLLDGMLEICGVPPEK 499
>gnl|CDD|203454 pfam06455, NADH5_C, NADH dehydrogenase subunit 5 C-terminus.
This family represents the C-terminal region of several
NADH dehydrogenase subunit 5 proteins and is found in
conjunction with pfam00361 and pfam00662.
Length = 181
Score = 26.0 bits (58), Expect = 2.5
Identities = 8/22 (36%), Positives = 9/22 (40%)
Query: 37 RDSYASYMGHYNMLNLFSINEN 58
R Y G +L INEN
Sbjct: 4 RLIYYVMTGSPRFSSLSPINEN 25
>gnl|CDD|165516 PHA03258, PHA03258, Capsid triplex subunit 2; Provisional.
Length = 304
Score = 25.8 bits (57), Expect = 2.8
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 5 YNIYSQLEHLQSKYVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKA 62
YNIYS++ + ++ + + + SYMG + +L+L +N + A A
Sbjct: 155 YNIYSRV--VAAE---PNDVNMAEVL-----LYTTNVSYMGRHYVLDLDEVNPSGALA 202
>gnl|CDD|216948 pfam02253, PLA1, Phospholipase A1. Phospholipase A1 is a bacterial
outer membrane bound acyl hydrolase with a broad
substrate specificity EC:3.1.1.32. It has been proposed
that Ser164 is the active site for Escherichia coli
phospholipase A1.
Length = 259
Score = 25.3 bits (56), Expect = 4.5
Identities = 6/26 (23%), Positives = 14/26 (53%)
Query: 43 YMGHYNMLNLFSINENEAKARVRFNF 68
YMG+ + + ++++E +R N
Sbjct: 183 YMGYGELTAAYKLDDHEFSLTLRNNL 208
>gnl|CDD|224128 COG1207, GlmU, N-acetylglucosamine-1-phosphate uridyltransferase
(contains nucleotidyltransferase and I-patch
acetyltransferase domains) [Cell envelope biogenesis,
outer membrane].
Length = 460
Score = 24.8 bits (55), Expect = 6.5
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 13 HLQSKYVGTGHA 24
LQ + +GTGHA
Sbjct: 72 VLQEEQLGTGHA 83
>gnl|CDD|211916 TIGR04193, SPASM_w_grasp, SPASM domain peptide maturase,
grasp-with-spasm system. A 4Fe-4S-binding C-terminal
domain is shared by radical SAM maturases for Subtilosin
A (S), PQQ (P), Anaerobic sulfatases (AS), and
mycofactocin (M), hence SPASM. Radical SAM proteins with
SPASM tend to be peptide maturases. All members of this
family, like some members of the quasi-rSAM family
TIGR04105, lack the 4Fe-4S cluster of the radical SAM
domain (pfam04055) in the N-terminal region. Members of
this family occur with an ATP-GRASP family protein,
known as a possible maturase from microviridin
biosynthetic clusters. Systems occur in Microscilla
marina ATCC 23134, Kordia algicida OT-1,
Sphingobacterium spiritivorum ATCC 33300, etc.
Length = 342
Score = 24.4 bits (53), Expect = 8.1
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 1 MGDRYNIYSQLEHLQSKYVGTGHADTTKFEWLVNI 35
M D I +QLE L ++ +TT E+L I
Sbjct: 107 MHDFKKIINQLEILACYHLQIRAYNTTSVEFLEEI 141
>gnl|CDD|131515 TIGR02462, pyranose_ox, pyranose oxidase. Pyranose oxidase (also
called glucose 2-oxidase) converts D-glucose and
molecular oxygen to 2-dehydro-D-glucose and hydrogen
peroxide. Peroxide production is believed to be
important to the wood rot fungi in which this enzyme is
found for lignin degradation.
Length = 544
Score = 24.4 bits (53), Expect = 9.0
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 26 TTKFEWLVNIHRDSYA 41
T + W IHRD+++
Sbjct: 373 TEEHPWHTQIHRDAFS 388
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
0.318 0.135 0.417
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,328,356
Number of extensions: 318537
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 224
Number of HSP's successfully gapped: 12
Length of query: 85
Length of database: 10,937,602
Length adjustment: 53
Effective length of query: 32
Effective length of database: 8,586,840
Effective search space: 274778880
Effective search space used: 274778880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.2 bits)