RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy472
(68 letters)
>gnl|CDD|215859 pfam00326, Peptidase_S9, Prolyl oligopeptidase family.
Length = 212
Score = 57.6 bits (140), Expect = 4e-12
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 1 MGLPTFEDNLEGYK-IAALNNKVDRIRDKQYLLVHGTMDDNVHFQQSMMLAKSLQHADI 58
M DN EGY+ ++ + + LL+HG DD V +++ L +LQ
Sbjct: 116 MEWGNPWDNEEGYRYLSPYSPYDNVKAYPPLLLIHGLHDDRVPPAEALKLVAALQAKGK 174
>gnl|CDD|224423 COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases
[Amino acid transport and metabolism].
Length = 620
Score = 42.5 bits (100), Expect = 2e-06
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 19 NNKVDRIRDKQYLLVHGTMDDNVHFQQSMMLAKSLQ 54
D I+ LL+HG DD V +Q+ L +L+
Sbjct: 544 IFYADNIKTPL-LLIHGEEDDRVPIEQAEQLVDALK 578
>gnl|CDD|182555 PRK10566, PRK10566, esterase; Provisional.
Length = 249
Score = 28.4 bits (64), Expect = 0.21
Identities = 11/40 (27%), Positives = 24/40 (60%)
Query: 20 NKVDRIRDKQYLLVHGTMDDNVHFQQSMMLAKSLQHADIM 59
++++++ D+ LL HG DD V +S+ L ++L+ +
Sbjct: 179 HQLEQLADRPLLLWHGLADDVVPAAESLRLQQALRERGLD 218
>gnl|CDD|234496 TIGR04198, paramyx_RNAcap, mRNA capping enzyme, paramyxovirus
family. This model represents a common C-terminal
region shared by paramyxovirus-like RNA-dependent RNA
polymerases (see model pfam00946). Polymerase proteins
described by these two models are often called L protein
(large polymerase protein). Capping of mRNA requires RNA
triphosphatase and guanylyl transferase activities,
demonstrated for the rinderpest virus L protein and at
least partially localized to the region of this model.
Length = 893
Score = 26.3 bits (58), Expect = 1.2
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 27 DKQYLLVHGTMDDNVHFQQSMMLAKSL 53
D L+ G + N+ FQQ M+L S+
Sbjct: 83 DTLNLISDGGKNYNLIFQQVMLLGLSI 109
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 26.0 bits (58), Expect = 1.4
Identities = 9/12 (75%), Positives = 9/12 (75%)
Query: 16 AALNNKVDRIRD 27
AA NN VD IRD
Sbjct: 95 AASNNGVDEIRD 106
>gnl|CDD|223999 COG1073, COG1073, Hydrolases of the alpha/beta superfamily [General
function prediction only].
Length = 299
Score = 25.8 bits (56), Expect = 1.6
Identities = 9/35 (25%), Positives = 18/35 (51%)
Query: 22 VDRIRDKQYLLVHGTMDDNVHFQQSMMLAKSLQHA 56
++I + LLVHG D+ V + + L ++ +
Sbjct: 227 AEKISPRPVLLVHGERDEVVPLRDAEDLYEAARER 261
>gnl|CDD|236055 PRK07575, PRK07575, dihydroorotase; Provisional.
Length = 438
Score = 25.4 bits (56), Expect = 2.3
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 10 LEGYKIAAL-----NNKVDRIRDKQYL-LVHGTMDDNVHFQQ 45
+E KI A+ VD + D + L L+ G +D VHF++
Sbjct: 26 VEDGKIVAIAPEISATAVDTVIDAEGLTLLPGVIDPQVHFRE 67
>gnl|CDD|226840 COG4409, NanH, Neuraminidase (sialidase) [Carbohydrate transport
and metabolism].
Length = 728
Score = 25.2 bits (55), Expect = 2.9
Identities = 9/47 (19%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 19 NNKVDRIRDKQYLLVHGTMDDNVHF-QQSMMLAKSLQHADIMFQSQE 64
++ V+ I+D + L M D + +++ + S A ++ E
Sbjct: 359 SSIVEDIKDGKLFLFMVVMPDGNYKTTAAIIDSGSKNIAGNVYLKSE 405
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 25.0 bits (56), Expect = 3.2
Identities = 9/19 (47%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 14 KIAALNNKVDRIRDKQYLL 32
I LN K+D ++DK+ LL
Sbjct: 116 VILVLN-KIDLVKDKEELL 133
>gnl|CDD|211578 TIGR00497, hsdM, type I restriction system adenine methylase
(hsdM). Function: methylation of specific adenine
residues; required for both restriction and modification
activities. The ECOR124/3 I enzyme recognizes
5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257:
960-969 (1996)) [DNA metabolism,
Restriction/modification].
Length = 501
Score = 24.5 bits (53), Expect = 4.6
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 7 EDNLEGYKIAALNNKVDRIRDKQ 29
E E I LN+ +D I DKQ
Sbjct: 475 EAEKEELDIKVLNHSIDEIVDKQ 497
>gnl|CDD|139376 PRK13150, PRK13150, cytochrome c-type biogenesis protein CcmE;
Reviewed.
Length = 159
Score = 24.6 bits (53), Expect = 5.2
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 23 DRIRDKQYLLVHGTMDDNVHFQQSMMLAK 51
D R+ Q ++V GT++ H +LAK
Sbjct: 101 DLFREGQGVVVQGTLEKGNHVLAHEVLAK 129
>gnl|CDD|235373 PRK05249, PRK05249, soluble pyridine nucleotide transhydrogenase;
Provisional.
Length = 461
Score = 24.0 bits (53), Expect = 6.9
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 5/21 (23%)
Query: 4 PTFEDNLEGYKIAALN--NKV 22
PT E Y++AAL+ N++
Sbjct: 443 PTMA---EAYRVAALDGLNRL 460
>gnl|CDD|206726 cd04163, Era, E. coli Ras-like protein (Era) is a multifunctional
GTPase. Era (E. coli Ras-like protein) is a
multifunctional GTPase found in all bacteria except some
eubacteria. It binds to the 16S ribosomal RNA (rRNA) of
the 30S subunit and appears to play a role in the
assembly of the 30S subunit, possibly by chaperoning the
16S rRNA. It also contacts several assembly elements of
the 30S subunit. Era couples cell growth with
cytokinesis and plays a role in cell division and energy
metabolism. Homologs have also been found in eukaryotes.
Era contains two domains: the N-terminal GTPase domain
and a C-terminal domain KH domain that is critical for
RNA binding. Both domains are important for Era
function. Era is functionally able to compensate for
deletion of RbfA, a cold-shock adaptation protein that
is required for efficient processing of the 16S rRNA.
Length = 168
Score = 24.0 bits (53), Expect = 6.9
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 14 KIAALNNKVDRIRDKQYLLVH 34
I LN K+D ++DK+ LL
Sbjct: 114 VILVLN-KIDLVKDKEDLLPL 133
>gnl|CDD|130246 TIGR01178, ade, adenine deaminase. The family described by this
model includes an experimentally characterized adenine
deaminase of Bacillus subtilis. It also include a
member from Methanobacterium thermoautotrophicum, in
which adenine deaminase activity has been detected
[Purines, pyrimidines, nucleosides, and nucleotides,
Salvage of nucleosides and nucleotides].
Length = 552
Score = 24.0 bits (52), Expect = 7.2
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 2/49 (4%)
Query: 10 LEGYKIAAL--NNKVDRIRDKQYLLVHGTMDDNVHFQQSMMLAKSLQHA 56
+ IA + N V I V G +D ++H + SM+
Sbjct: 24 IANGHIAGVGKYNGVKVIDALGEYAVPGFIDAHIHIESSMLTPSEFAKL 72
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
0.323 0.135 0.394
Gapped
Lambda K H
0.267 0.0621 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,339,743
Number of extensions: 236383
Number of successful extensions: 261
Number of sequences better than 10.0: 1
Number of HSP's gapped: 260
Number of HSP's successfully gapped: 17
Length of query: 68
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 29
Effective length of database: 9,207,796
Effective search space: 267026084
Effective search space used: 267026084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.4 bits)