RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15594
(200 letters)
>gnl|CDD|221326 pfam11935, DUF3453, Domain of unknown function (DUF3453). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 239 to 261 amino acids in length.
Length = 233
Score = 32.6 bits (75), Expect = 0.091
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 53 RKKLR-ECEGLIDSLLYVVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLK 103
+ L E +GL+D LL V++ S L + + L I KQR ++ R+L
Sbjct: 105 YQNLEAEAKGLLDRLLKVLQEDSIDSPLLTATLNSLAIIAKQRPQFANRILN 156
>gnl|CDD|236672 PRK10318, PRK10318, hypothetical protein; Provisional.
Length = 121
Score = 31.3 bits (71), Expect = 0.11
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 9/56 (16%)
Query: 17 QGTSDDT--IAAVLATLNEVIKKNAEFSRNASS-----AGEYARKKLRECEGLIDS 65
+ T+ + I A+L L + KK+ F RN A + R KL ID+
Sbjct: 19 KLTAHEEARINAMLEGLAQ--KKDCTFVRNGDEHTCKEAVSHLRLKLGNTRNRIDT 72
>gnl|CDD|235056 PRK02627, PRK02627, acetylornithine aminotransferase; Provisional.
Length = 396
Score = 30.9 bits (71), Expect = 0.46
Identities = 28/93 (30%), Positives = 39/93 (41%), Gaps = 26/93 (27%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRECE------------GLI------DSL 66
AA LA + + ++ NA+ GEY R KLRE GL+
Sbjct: 289 AAALAVIEIIEEEG--LLENAAEVGEYLRAKLRELLEKYPGIKEVRGLGLMIGIELDRPA 346
Query: 67 LYVVKSAIEKSLL---ESGGVERLM---NITKQ 93
+VK A+EK LL V RL+ I+K+
Sbjct: 347 AEIVKKALEKGLLINVTGDNVLRLLPPLIISKE 379
>gnl|CDD|181234 PRK08117, PRK08117, 4-aminobutyrate aminotransferase; Provisional.
Length = 433
Score = 30.8 bits (70), Expect = 0.51
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
AA LATL EVIK + NA+ G YA ++L
Sbjct: 314 AAALATL-EVIK-EEKLLDNANEMGAYALERLEV 345
>gnl|CDD|181401 PRK08360, PRK08360, 4-aminobutyrate aminotransferase; Provisional.
Length = 443
Score = 30.1 bits (68), Expect = 0.75
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
AA LA + E+ +KN + A G Y +K+L E
Sbjct: 311 AAALAVIEEIEEKN--LLKRAEKLGNYTKKRLEE 342
>gnl|CDD|235599 PRK05769, PRK05769, 4-aminobutyrate aminotransferase; Provisional.
Length = 441
Score = 29.5 bits (67), Expect = 1.2
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 24 IAAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
AA LATL E +++ NA GEY RK+L+E
Sbjct: 326 AAAALATL-EELEEG--LLENAQKLGEYLRKELKE 357
>gnl|CDD|223238 COG0160, GabT, 4-aminobutyrate aminotransferase and related
aminotransferases [Amino acid transport and metabolism].
Length = 447
Score = 29.5 bits (67), Expect = 1.3
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLREC 59
AA LA L+ + ++N A+ GEY R +L E
Sbjct: 328 AAALAVLDVIEEEN--LLERAAELGEYLRDRLEEL 360
>gnl|CDD|132722 cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of Eukaryotic RNA
polymerase I (RNAP I), C-terminal domain. RNA
polymerase I (RNAP I) is a multi-subunit protein complex
responsible for the synthesis of rRNA precursor. It
consists of at least 14 different subunits, and the
largest one is homologous to subunit Rpb1 of yeast RNAP
II and subunit beta' of bacterial RNAP. Rpa1 is also
known as Rpa190 in yeast. Structure studies suggest that
different RNAP complexes share a similar crab-claw-shape
structure. The C-terminal domain of Rpb1, the largest
subunit of RNAP II, makes up part of the foot and jaw
structures of RNAP II. The similarity between this
domain and the C-terminal domain of Rpb1, its
counterpart in RNAP II, suggests a similar functional
and structural role.
Length = 309
Score = 29.1 bits (66), Expect = 1.3
Identities = 12/59 (20%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 66 LLYVVKSAIEKSLL-ESGGVERLMNITKQRQKYTPRVLKFAGQVLFTMWQHQELREVYK 123
LL +V+ K+++ E G+ R + + + T ++ G L +W+ ++ +V +
Sbjct: 134 LLSIVEKLARKAVIREIPGITRCFVVEEDKGGKTKYLVITEGVNLAALWKFSDILDVNR 192
>gnl|CDD|235672 PRK06012, flhA, flagellar biosynthesis protein FlhA; Validated.
Length = 697
Score = 28.5 bits (65), Expect = 2.9
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 25 AAVLAT-LNEVIKKNAE--FSR 43
+ V+AT L EVIK +A R
Sbjct: 485 STVVATHLTEVIKNHAAELLGR 506
>gnl|CDD|185293 PRK15395, PRK15395, methyl-galactoside ABC transporter
galactose-binding periplasmic protein MglB;
Provisional.
Length = 330
Score = 28.2 bits (63), Expect = 3.1
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 64 DSLLYVVKSAIEKSLLESGGVERLMNITKQRQ 95
D+ + VV+ AIEK + V+ LMN ++ Q
Sbjct: 36 DNFMSVVRKAIEKDAKAAPDVQLLMNDSQNDQ 67
>gnl|CDD|185247 PRK15349, PRK15349, type III secretion system protein SsaT;
Provisional.
Length = 259
Score = 27.6 bits (61), Expect = 4.1
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 81 SGGVERLMNITKQRQKYTP--RVLKFAGQVLFTMWQHQELREVYK 123
SGG+E ++NI + +Y P R L F Q F + E R +Y+
Sbjct: 140 SGGMEFILNILYESYQYLPPGRTLLFDRQ--FLKYIQAEWRTLYQ 182
>gnl|CDD|179901 PRK04964, PRK04964, hypothetical protein; Provisional.
Length = 66
Score = 25.8 bits (57), Expect = 4.1
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 3 DLVQKLPSGNAQHDQGTSDDTIAAVLATLNEV 34
+LV+K + D G D + VL LNE+
Sbjct: 6 ELVRKRYAEIGSGDLGYVPDALGCVLKALNEI 37
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 27.7 bits (62), Expect = 4.4
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 22 DTIAAVLATLNEVIKKNAEFSRNASSAGEYARKKLR-----ECEGLIDSL 66
++I ++ +NE+I+++ E N A+KKL E + ID+
Sbjct: 364 ESINDIIDAINELIREHNEKIDNLKKEKNKAKKKLWLHLVAELKEDIDAY 413
>gnl|CDD|237545 PRK13888, PRK13888, conjugal transfer protein TrbN; Provisional.
Length = 206
Score = 27.1 bits (60), Expect = 5.2
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 127 WKEQDFVTKTVAARNAGPNSPNNANST 153
W E FVT V A P++P+ +
Sbjct: 137 WLEARFVTLDVTKAGATPSTPSQPATV 163
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
0.313 0.127 0.354
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,725,960
Number of extensions: 863430
Number of successful extensions: 679
Number of sequences better than 10.0: 1
Number of HSP's gapped: 679
Number of HSP's successfully gapped: 29
Length of query: 200
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 108
Effective length of database: 6,857,034
Effective search space: 740559672
Effective search space used: 740559672
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.4 bits)