RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8039
(105 letters)
>gnl|CDD|191140 pfam04960, Glutaminase, Glutaminase. This family of enzymes
deaminates glutamine to glutamate EC:3.5.1.2.
Length = 286
Score = 137 bits (347), Expect = 2e-41
Identities = 40/82 (48%), Positives = 54/82 (65%)
Query: 22 QVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81
+VADYIP LA+ DP G++V TVDGQ +S G + PF++QS SK T A+AL +L +E
Sbjct: 2 KVADYIPALAKVDPDLLGIAVVTVDGQVHSAGDADEPFSLQSISKVFTLALALGDLGEEY 61
Query: 82 VHKYVGQEPSGRNFNELILDHN 103
V VG+EPSG FN ++
Sbjct: 62 VWSRVGKEPSGDPFNSIVQLET 83
>gnl|CDD|234880 PRK00971, PRK00971, glutaminase; Provisional.
Length = 307
Score = 116 bits (294), Expect = 2e-33
Identities = 41/78 (52%), Positives = 56/78 (71%)
Query: 22 QVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81
+VADYIP+LA+ DP G++VCTVDG+ YS G + F+IQS SK + A+AL+ +EE
Sbjct: 23 KVADYIPELAKVDPNKLGIAVCTVDGEVYSAGDADERFSIQSISKVFSLALALQHYGEEE 82
Query: 82 VHKYVGQEPSGRNFNELI 99
V + VG+EPSG FN L+
Sbjct: 83 VWQRVGKEPSGDPFNSLV 100
>gnl|CDD|234362 TIGR03814, Gln_ase, glutaminase A. This family describes the
enzyme glutaminase, from a larger family that includes
serine-dependent beta-lactamases and penicillin-binding
proteins. Many bacteria have two isozymes. This model
is based on selected known glutaminases and their
homologs within prokaryotes, with the exclusion of
highly-derived (long branch) and architecturally varied
homologs, so as to achieve conservative assignments. A
sharp drop in scores occurs below 250, and cutoffs are
set accordingly. The enzyme converts glutamine to
glutamate, with the release of ammonia. Members tend to
be described as glutaminase A (glsA), where B (glsB) is
unknown and may not be homologous (as in Rhizobium
etli). Some species have two isozymes that may both be
designated A (GlsA1 and GlsA2) [Energy metabolism,
Amino acids and amines].
Length = 300
Score = 112 bits (284), Expect = 5e-32
Identities = 40/78 (51%), Positives = 58/78 (74%)
Query: 22 QVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81
+VADYIP LA+ DP +G++V T+DG+ +S G ++PF+IQS SK T A+ALE+L ++E
Sbjct: 16 KVADYIPALAKVDPNQFGIAVVTLDGEVFSAGDADVPFSIQSISKVFTLALALEDLGEDE 75
Query: 82 VHKYVGQEPSGRNFNELI 99
V + VG EPSG FN ++
Sbjct: 76 VWERVGVEPSGDPFNSIV 93
>gnl|CDD|224977 COG2066, GlsA, Glutaminase [Amino acid transport and metabolism].
Length = 309
Score = 110 bits (278), Expect = 5e-31
Identities = 41/84 (48%), Positives = 56/84 (66%), Gaps = 1/84 (1%)
Query: 22 QVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81
+VADYIP LA+ DP +G+++ TVDGQ YS G + F+IQS SK T A+ALE++ +
Sbjct: 25 KVADYIPALAKVDPDLFGIAIVTVDGQVYSAGDADERFSIQSISKVFTLALALEDIGPDY 84
Query: 82 VHKYVGQEPSGRNFNELI-LDHNS 104
V + VG EPSG FN +I L+
Sbjct: 85 VWQRVGAEPSGLPFNSVIQLELEG 108
>gnl|CDD|237073 PRK12356, PRK12356, glutaminase; Reviewed.
Length = 319
Score = 101 bits (255), Expect = 1e-27
Identities = 35/85 (41%), Positives = 50/85 (58%), Gaps = 2/85 (2%)
Query: 22 QVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81
+ ADYIP LA +GV+V T DGQ YS G ++ F I+S SK T A+ALE++ +
Sbjct: 28 KNADYIPALANVPSDLFGVAVVTTDGQVYSAGDSDYRFAIESISKVFTLALALEDVGPQA 87
Query: 82 VHKYVGQEPSGRNFNEL--ILDHNS 104
V + +G +P+G FN + I H
Sbjct: 88 VREKIGADPTGLPFNSVIAIELHGG 112
>gnl|CDD|237074 PRK12357, PRK12357, glutaminase; Reviewed.
Length = 326
Score = 60.9 bits (148), Expect = 3e-12
Identities = 25/78 (32%), Positives = 37/78 (47%)
Query: 22 QVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81
+ A YIP L + G+ + DG G +PFT+QS SK +++ A
Sbjct: 32 RSASYIPALGEINVSQLGICIVKPDGTMIKSGDWEVPFTLQSISKVISFIAACLSRGISY 91
Query: 82 VHKYVGQEPSGRNFNELI 99
V + V EP+G FN +I
Sbjct: 92 VLERVDVEPTGDAFNSII 109
>gnl|CDD|130522 TIGR01455, glmM, phosphoglucosamine mutase. This model describes
GlmM, phosphoglucosamine mutase, also designated in MrsA
and YhbF E. coli, UreC in Helicobacter pylori, and
femR315 or FemD in Staphlococcus aureus. It converts
glucosamine-6-phosphate to glucosamine-1-phosphate as
part of the pathway toward UDP-N-acetylglucosamine for
peptidoglycan and lipopolysaccharides [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan, Central intermediary metabolism, Amino
sugars].
Length = 443
Score = 29.3 bits (66), Expect = 0.28
Identities = 20/82 (24%), Positives = 30/82 (36%), Gaps = 15/82 (18%)
Query: 29 QLARADPKYWGVSVCTVDGQRYSIG--KTNIP--FTIQ------SCSKPLTYAIA---LE 75
L R + + G D I K+ +P T+ C+ Y +A
Sbjct: 134 PLPRPESEGLGRVKRYPDAVGRYIEFLKSTLPRGLTLSGLKVVLDCANGAAYKVAPHVFR 193
Query: 76 ELDQEEVHKYVGQEPSGRNFNE 97
EL E + +G EP G N N+
Sbjct: 194 ELGAEVI--AIGVEPDGLNIND 213
>gnl|CDD|219094 pfam06583, Neogenin_C, Neogenin C-terminus. This family represents
the C-terminus of eukaryotic neogenin precursor
proteins, which contains several potential
phosphorylation sites. Neogenin is a member of the N-CAM
family of cell adhesion molecules (and therefore
contains multiple copies of pfam00047 and pfam00041) and
is closely related to the DCC tumour suppressor gene
product - these proteins may play an integral role in
regulating differentiation programmes and/or cell
migration events within many adult and embryonic
tissues.
Length = 295
Score = 29.5 bits (66), Expect = 0.29
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 4/53 (7%)
Query: 41 SVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEPSGR 93
S+ ++ +R K IP Q +P+ A + LD +Y G PS R
Sbjct: 69 SMSSLAARRGMRPKMMIPMDSQP-PQPVVSAHPIHTLDN---PQYPGILPSPR 117
>gnl|CDD|185203 PRK15303, PRK15303, hypothetical protein; Provisional.
Length = 229
Score = 28.0 bits (62), Expect = 0.77
Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 33 ADPKYWGVSV--------CTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELD 78
++P W ++ YS+G N P + + P+ A A++ D
Sbjct: 155 SNPGVWALASNEYVALTNTFPTRTTYSVGDGNGPAAFTTATFPIRVAAAIQGTD 208
>gnl|CDD|235014 PRK02227, PRK02227, hypothetical protein; Provisional.
Length = 238
Score = 27.2 bits (61), Expect = 1.3
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 27 IPQLARADPKYWGV--SVCTVDGQRYSI 52
IP L R P GV +VC + I
Sbjct: 194 IPALKRLGPDILGVRGAVCGGGDRTGRI 221
>gnl|CDD|233272 TIGR01099, galU, UTP-glucose-1-phosphate uridylyltransferase.
Built to distinquish between the highly similar genes
galU and galF [Cell envelope, Biosynthesis and
degradation of surface polysaccharides and
lipopolysaccharides].
Length = 260
Score = 26.1 bits (58), Expect = 3.3
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 71 AIALEELDQEEVHKY 85
IA+EE+ +EEV KY
Sbjct: 152 IIAVEEVPKEEVSKY 166
>gnl|CDD|223834 COG0763, LpxB, Lipid A disaccharide synthetase [Cell envelope
biogenesis, outer membrane].
Length = 381
Score = 26.1 bits (58), Expect = 3.6
Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 12/65 (18%)
Query: 53 GKTNIPFTIQSCSKPLTYAIALEEL------------DQEEVHKYVGQEPSGRNFNELIL 100
G+ +P IQ P A ALEEL E+H+Y+ ++P+ + +L
Sbjct: 317 GREIVPELIQEDCTPENLARALEELLLNGDRREALKEKFRELHQYLREDPASEIAAQAVL 376
Query: 101 DHNSE 105
+
Sbjct: 377 ELLLG 381
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 25.2 bits (56), Expect = 6.9
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 2/22 (9%)
Query: 74 LEELDQEEVHK--YVGQEPSGR 93
L EL + + Y+G EPSG+
Sbjct: 21 LRELLESKEEPKAYIGFEPSGK 42
>gnl|CDD|234308 TIGR03682, arCOG04112, diphthamide biosynthesis enzyme Dph2.
Members of this family are the archaeal protein Dph2,
members of the universal archaeal protein family
designated arCOG04112. The chemical function of this
protein is analogous to the radical SAM family
(pfam04055), although the sequence is not homologous.
The chemistry involves [4Fe-4S]-aided formation of a
3-amino-3-carboxypropyl radical rather than the
canonical 5'-deoxyadenosyl radical of the radical SAM
family.
Length = 308
Score = 25.3 bits (56), Expect = 7.2
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 14 NKVQLFLRQVADYIPQLARA-DPKYWGVSVCTVDGQR 49
++ FLR ++++A D K +G+ V T GQR
Sbjct: 193 AEIDKFLRV---RYARISKALDAKKFGILVSTKKGQR 226
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 25.1 bits (56), Expect = 7.8
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 9 SSKFSNKVQLFLRQVADYIPQLARAD 34
S+K K + F +Q+A +P L
Sbjct: 590 SAKDEEKAEKFAQQLAALLPNLLPLL 615
>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated.
Length = 434
Score = 25.2 bits (55), Expect = 8.6
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 46 DGQRYSI------GKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEPSG 92
GQR + GK+++ TI SK IAL EV +Y+ Q G
Sbjct: 156 KGQRIGVFSEPGSGKSSLLSTIAKGSKSTINVIALIGERGREVREYIEQHKEG 208
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 24.9 bits (55), Expect = 9.5
Identities = 9/20 (45%), Positives = 11/20 (55%), Gaps = 5/20 (25%)
Query: 32 RADPKYWGVSVCTVDGQRYS 51
R DP+ WGV+V Q S
Sbjct: 94 RLDPEKWGVNV-----QPLS 108
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
0.316 0.132 0.388
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,169,029
Number of extensions: 416036
Number of successful extensions: 359
Number of sequences better than 10.0: 1
Number of HSP's gapped: 359
Number of HSP's successfully gapped: 25
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
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 (21.6 bits)
S2: 53 (24.2 bits)