RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11248
(227 letters)
>gnl|CDD|222204 pfam13532, 2OG-FeII_Oxy_2, 2OG-Fe(II) oxygenase superfamily.
Length = 190
Score = 45.7 bits (109), Expect = 3e-06
Identities = 32/112 (28%), Positives = 48/112 (42%), Gaps = 9/112 (8%)
Query: 23 EVDPIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHIDPPHI-FDRPIISL 81
P PA + L +L P N+ ++N Y+PG + H D + F PI+S+
Sbjct: 68 PWPPFPAVLLQLA-ERLAAAAGPPGFEPNACLVNFYRPGARMGLHQDKDELDFGAPIVSV 126
Query: 82 SLFSDSALCFGCKFNFKPIRVSEPVLYLPVQRGCVTLLRDFAANGITHCVRP 133
SL D AL F F +P + LP++ G V L+ + H V
Sbjct: 127 SL-GDPAL-----FRFGGKTRDDPTIALPLESGDV-LVMGGPSRLAYHGVPR 171
>gnl|CDD|225687 COG3145, AlkB, Alkylated DNA repair protein [DNA replication,
recombination, and repair].
Length = 194
Score = 41.3 bits (97), Expect = 1e-04
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 7/76 (9%)
Query: 46 PPNYINSAVINDYQPGGCIVSHIDPPHIFDR-PIISLSLFSDSALCFGCKFNFKPIRVSE 104
P + ++N Y+PG I H D DR P+ SLSL + C F + R
Sbjct: 101 PFEGPEAVLVNRYRPGASIGWHQDKDEEDDRPPVASLSLGAP------CIFRLRGRRRRG 154
Query: 105 PVLYLPVQRGCVTLLR 120
P L L ++ G V ++
Sbjct: 155 PGLRLRLEHGDVVVMG 170
>gnl|CDD|236931 PRK11563, PRK11563, bifunctional aldehyde dehydrogenase/enoyl-CoA
hydratase; Provisional.
Length = 675
Score = 28.7 bits (65), Expect = 2.8
Identities = 11/26 (42%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 2 YTYGSQLVRKGLGNERLYPEGEVDPI 27
+TY S R+ L N+ + EGEV+P+
Sbjct: 109 FTYAS-KGRRELPNDTVLVEGEVEPL 133
>gnl|CDD|131554 TIGR02502, type_III_YscX, type III secretion protein, YscX family.
Members of this family are encoded within bacterial type
III secretion gene clusters. Among all species with type
III secretion, those with this protein are found among
those that target animal rather than plant cells. The
member of this family in Yersinia was shown by mutation
to be required for type III secretion of Yops effector
proteins and therefore is believe to be part of the
secretion machinery [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 121
Score = 27.4 bits (61), Expect = 3.3
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 10/48 (20%)
Query: 119 LRDFAANGITHC--VRPQDTQYRRAVILLRRVLPHAPRLTLSQTPRVK 164
L FA + +RP+D YR+A+ L+++ L S + ++
Sbjct: 56 LLAFAKPQLNFHGLLRPED--YRQALDNLQQL------LQESGSANLQ 95
>gnl|CDD|118011 pfam09474, Type_III_YscX, Type III secretion system YscX
(type_III_YscX). Members of this family are encoded
within bacterial type III secretion gene clusters. Among
all species with type III secretion, those with this
protein are found among those that target animal rather
than plant cells. The member of this family in Yersinia
was shown by mutation to be required for type III
secretion of Yops effector proteins and therefore is
believed to be part of the secretion machinery.
Length = 121
Score = 27.0 bits (60), Expect = 4.0
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 10/47 (21%)
Query: 119 LRDFAANGITHC--VRPQDTQYRRAVILLRRVLPHAPRLTLSQTPRV 163
L DFA +T +RP D +R+A+ LR + L S +P +
Sbjct: 56 LLDFARPQLTFHGLLRPGD--FRQALDTLRLL------LQESGSPEL 94
>gnl|CDD|222280 pfam13640, 2OG-FeII_Oxy_3, 2OG-Fe(II) oxygenase superfamily. This
family contains members of the 2-oxoglutarate (2OG) and
Fe(II)-dependent oxygenase superfamily.
Length = 93
Score = 26.6 bits (59), Expect = 4.2
Identities = 21/93 (22%), Positives = 35/93 (37%), Gaps = 7/93 (7%)
Query: 53 AVINDYQPGGCIVSHIDPPHIFDRPIISLSLF--SDSALCFGCKFNFKPIRVSEPVLYLP 110
A ++ Y+PGG + H D + ++L L+ D G + P V +
Sbjct: 1 AGLSRYRPGGFLGPHTD--NSKGERRVTLLLYLNDDWWPEEGGELELYPSDDGGVVRVIA 58
Query: 111 VQRGCVTLLRDFAANGITHCVRPQDTQYRRAVI 143
+ G + L F + H V P RR +
Sbjct: 59 PKPGRLVL---FRSGNSLHGVTPVGAGRRRLSL 88
>gnl|CDD|223363 COG0286, HsdM, Type I restriction-modification system
methyltransferase subunit [Defense mechanisms].
Length = 489
Score = 27.4 bits (61), Expect = 7.1
Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 17/74 (22%)
Query: 139 RRAVI-LLRRVLPHAPRLTLSQTPRVKPYHSLYDVQARESGGYFRSSIETYNNNENHSNK 197
R V L+ +L +P +S+YD A SGG ++ + H ++
Sbjct: 171 PREVSELIVELLDP------------EPRNSIYDP-ACGSGGML---LQAAKYLKRHQDE 214
Query: 198 NTSNGLDSVETHYN 211
G + +T Y
Sbjct: 215 IFIYGQEINDTTYR 228
>gnl|CDD|145854 pfam02918, Pertussis_S2S3, Pertussis toxin, subunit 2 and 3,
C-terminal domain.
Length = 109
Score = 26.0 bits (57), Expect = 9.1
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 106 VLYLPVQRGCVTLLRDFAANGITHCVRPQDTQYRRAVILLRRVL 149
+L R C +RD I C+ P +YR LRR L
Sbjct: 22 LLDSTNSRLCAVFVRD-GQPVIGACISPYAGRYREMYATLRRAL 64
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 0.137 0.418
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,527,596
Number of extensions: 1065587
Number of successful extensions: 834
Number of sequences better than 10.0: 1
Number of HSP's gapped: 831
Number of HSP's successfully gapped: 20
Length of query: 227
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 134
Effective length of database: 6,812,680
Effective search space: 912899120
Effective search space used: 912899120
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 (21.7 bits)
S2: 57 (25.9 bits)