RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4774
(120 letters)
>gnl|CDD|111929 pfam03088, Str_synth, Strictosidine synthase. Strictosidine
synthase (E.C. 4.3.3.2) is a key enzyme in alkaloid
biosynthesis. It catalyzes the condensation of
tryptamine with secologanin to form strictosidine.
Length = 89
Score = 35.8 bits (83), Expect = 7e-04
Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 63 NSVTVDSD-GMVYWSDSSTKYKLYDGLFDGLTS-GSGSFIKIGPNTQEV 109
N++ VD + G++Y++DSS++Y +F L +G +K P+T+
Sbjct: 1 NALDVDPETGVLYFTDSSSRYDRRQVIFAMLEGDKTGRLMKYDPSTKVT 49
>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
metabolism].
Length = 307
Score = 37.4 bits (87), Expect = 7e-04
Identities = 24/98 (24%), Positives = 37/98 (37%), Gaps = 9/98 (9%)
Query: 12 GRPLGMKFDKNGALHVADAYFGLYKVNVTTGQTEQLISMDTEIDGAKPQIPNSVTVDSDG 71
G G D G L + G+ ++ TG L++ DG PN VD DG
Sbjct: 67 GFSSGALIDAGGRLIACE--HGVRLLDPDTGGKITLLAEPE--DGLPLNRPNDGVVDPDG 122
Query: 72 MVYWSDSSTKYKLYDGLFDGLTSGSGSFIKIGPNTQEV 109
+++ D Y L +GS ++ P+ V
Sbjct: 123 RIWFGDMG-----YFDLGKSEERPTGSLYRVDPDGGVV 155
>gnl|CDD|235557 PRK05682, flgE, flagellar hook protein FlgE; Validated.
Length = 407
Score = 31.0 bits (71), Expect = 0.11
Identities = 21/84 (25%), Positives = 30/84 (35%), Gaps = 19/84 (22%)
Query: 17 MKFDKNGALHVADA--YFGLYKVNVTTGQTEQLISMD---------------TEIDGAKP 59
+ FD NGAL + F + Q I++D T DG P
Sbjct: 231 LTFDSNGALTTTTSPTTFNITGGATNGADGGQTITLDLSGSTQYASGFTVSATTQDGYAP 290
Query: 60 QIPNSVTVDSDGMVY--WSDSSTK 81
++D DG V +S+ TK
Sbjct: 291 GTLTGYSIDDDGTVTAVYSNGQTK 314
>gnl|CDD|117609 pfam09043, Lys-AminoMut_A, D-Lysine 5,6-aminomutase alpha subunit.
Members of his family are involved in the 1,2
rearrangement of the terminal amino group of DL-lysine
and of L-beta-lysine, using adenosylcobalamin (AdoCbl)
and pyridoxal-5'-phosphate as cofactors. The structure
is predominantly a PLP-binding TIM barrel domain, with
several additional alpha-helices and beta-strands at the
N and C termini. These helices and strands form an
intertwined accessory clamp structure that wraps around
the sides of the TIM barrel and extends up toward the
Ado ligand of the Cbl cofactor, providing most of the
interactions observed between the protein and the Ado
ligand of the Cbl, suggesting that its role is mainly in
stabilising AdoCbl in the precatalytic resting state.
Length = 509
Score = 29.3 bits (66), Expect = 0.38
Identities = 24/97 (24%), Positives = 32/97 (32%), Gaps = 29/97 (29%)
Query: 26 HVADAYFGLYKVNVTTGQTEQLISMDTE-------------IDGAK------PQIPNSVT 66
HV DA F + V + TGQ L+ M TE I+ AK I +
Sbjct: 382 HVQDALFNM--VTIMTGQGIHLLGMLTEAIHTPFMSDRALAIENAKYIFNNMKDIGEEIE 439
Query: 67 VDSDGMVYWSDSSTKYKLY--------DGLFDGLTSG 95
G++ K DGLF + G
Sbjct: 440 FKEGGIIQSRAQEVLEKALALLEEIEQDGLFQAIEKG 476
>gnl|CDD|224924 COG2013, COG2013, Uncharacterized conserved protein [Function
unknown].
Length = 227
Score = 28.8 bits (65), Expect = 0.53
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 64 SVTVDSDGMVYWSDSSTKYKLY--DGLFDGLTSGSGSF 99
+VTVD +V +SD S Y + GL L SG G
Sbjct: 161 TVTVDPGHVVAFSD-SLDYSVEKVGGLKSSLLSGEGLV 197
>gnl|CDD|214531 smart00135, LY, Low-density lipoprotein-receptor YWTD domain.
Type "B" repeats in low-density lipoprotein (LDL)
receptor that plays a central role in mammalian
cholesterol metabolism. Also present in a variety of
molecules similar to gp300/megalin.
Length = 43
Score = 26.8 bits (60), Expect = 0.67
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 62 PNSVTVD-SDGMVYWSDSSTKY 82
PN + VD +G +YW+D
Sbjct: 11 PNGLAVDWIEGRLYWTDWGLDV 32
>gnl|CDD|215497 PLN02919, PLN02919, haloacid dehalogenase-like hydrolase family
protein.
Length = 1057
Score = 28.7 bits (64), Expect = 0.90
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 3 DGFKYEQQCGRPLGMKFDKNGALHVADAY 31
DG E PLG+ K+G ++VAD+Y
Sbjct: 795 DGVGSEVLLQHPLGVLCAKDGQIYVADSY 823
Score = 25.6 bits (56), Expect = 9.5
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 3 DGFKYEQQCGRPLGMKFDKNGALHVADAYFGLYKV-NVTTGQTEQLISMDTEIDGAKPQI 61
DG + Q P G+ +NG L VAD L + ++ G+ +++++ E+ G +P
Sbjct: 850 DGKALKAQLSEPAGLALGENGRLFVADTNNSLIRYLDLNKGEAAEILTL--ELKGVQPPR 907
Query: 62 PNS 64
P S
Sbjct: 908 PKS 910
>gnl|CDD|170049 PRK09692, PRK09692, integrase; Provisional.
Length = 413
Score = 26.5 bits (58), Expect = 4.1
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 51 DTEIDGAKPQIPNSVTVDSDGMVYWSDSS 79
DTEI AKP+ + V D DG+ SS
Sbjct: 10 DTEIKAAKPKEADYVLYDGDGLELLIKSS 38
>gnl|CDD|233978 TIGR02701, shell_carb_anhy, carboxysome shell carbonic anhydrase.
This model describes a carboxysome shell protein that
proves to be a novel class, designated epsilon, of
carbonic anhydrase. It tends to be encoded near genes
for RuBisCo and for other carboxysome shell proteins
[Central intermediary metabolism, One-carbon
metabolism].
Length = 450
Score = 26.3 bits (58), Expect = 4.4
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 8/40 (20%)
Query: 47 LISMDTEIDGAKPQIPNSVTVDSDGMV---YWSDSSTKYK 83
LI +DT+ D + IP D+DG V + D++ Y
Sbjct: 242 LIGVDTDTDAIRVHIP-----DADGFVNLYRYVDNTVLYA 276
>gnl|CDD|236026 PRK07482, PRK07482, hypothetical protein; Provisional.
Length = 461
Score = 26.5 bits (59), Expect = 4.4
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 29 DAYFGLYKVNVTTGQTE 45
DA+ GLY VNV G+TE
Sbjct: 54 DAFAGLYCVNVGYGRTE 70
>gnl|CDD|200560 cd10934, CE4_cadherin_MopE_like_N, N-terminal Putative NodB-like
catalytic domain of hypothetical proteins containing
C-terminal cadherin or MopE copper binding domains. The
family includes several cadherin or MopE copper binding
domain containing hypothetical proteins found in
bacteria. Cadherins are glycoproteins involved in
Ca2+-mediated cell-cell adhesion. The cadherin domains
occur as repeats in the extracellular regions which are
thought to mediate cell-cell contact when bound to
calcium. They play a role in cell fate, signalling,
proliferation, differentiation, and migration. The
copper binding domain involves a tryptophan metabolite,
kynurenine, in the protein MopE. Members of this family
contain an additional conserved domain, which is
N-terminally fused to the cadherin domain or the MopE
copper binding domain. Although its function remains
unclear, the conserved domain exhibits a seven-stranded
barrel with a detectable sequence similarity to the
six-stranded barrel rhizobial NodB-like proteins, which
remove N-linked or O-linked acetyl groups from cell wall
polysaccharides and belong to the larger carbohydrate
esterase 4 (CE4) superfamily.
Length = 267
Score = 26.3 bits (58), Expect = 4.7
Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 5/76 (6%)
Query: 35 YKVNVTTGQTEQLISMDTEIDGAKPQIPNSVTVDSDGMVYWSDSSTKYKL----YDGLFD 90
++ +T + EQ + D A P P ++ V + Y S Y Y G F
Sbjct: 103 FEFQQSTAELEQQLGADLV-GAAIPGAPETLAVSQEINKYVDYLSGGYSGVGAGYPGAFG 161
Query: 91 GLTSGSGSFIKIGPNT 106
LT G + + PN
Sbjct: 162 YLTPGDQGKVYLAPNM 177
>gnl|CDD|233879 TIGR02468, sucrsPsyn_pln, sucrose phosphate synthase/possible
sucrose phosphate phosphatase, plant. Members of this
family are sucrose-phosphate synthases of plants. This
enzyme is known to exist in multigene families in
several species of both monocots and dicots. The
N-terminal domain is the glucosyltransferase domain.
Members of this family also have a variable linker
region and a C-terminal domain that resembles sucrose
phosphate phosphatase (SPP) (EC 3.1.3.24) (see
TIGR01485), the next and final enzyme of sucrose
biosynthesis. The SPP-like domain likely serves a
binding and not a catalytic function, as the reported
SPP is always encoded by a distinct protein.
Length = 1050
Score = 25.9 bits (57), Expect = 6.0
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 48 ISMDTEIDGAKPQIPNSVTVDSDGMVYWSDSSTKYKLY 85
IS+ K ++P + M WSD + KLY
Sbjct: 136 ISVAGGEPSTKGRLPRISSNLE--METWSDQQKEKKLY 171
>gnl|CDD|236302 PRK08578, PRK08578, preprotein translocase subunit SecF; Reviewed.
Length = 292
Score = 25.7 bits (57), Expect = 7.7
Identities = 8/36 (22%), Positives = 12/36 (33%)
Query: 82 YKLYDGLFDGLTSGSGSFIKIGPNTQEVLQKQTDKL 117
G+ SG+G I G + K D +
Sbjct: 70 LSGEPGVDVRKGSGNGYIITFGSGDDTDVDKLADAV 105
>gnl|CDD|224437 COG1520, COG1520, FOG: WD40-like repeat [Function unknown].
Length = 370
Score = 25.6 bits (56), Expect = 8.4
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 4/53 (7%)
Query: 34 LYKVNVTTGQTEQLISMDTEIDGAKPQIPNSVTVDSDGMVYWSDSSTKYKLYD 86
LY +N TG + + I S + + G VY LY
Sbjct: 165 LYALNADTGTLKWTYETPAPLS---LSIYGSPAI-ASGTVYVGSDGYDGILYA 213
>gnl|CDD|215175 PLN02309, PLN02309, 5'-adenylylsulfate reductase.
Length = 457
Score = 25.5 bits (56), Expect = 8.9
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 86 DGLFDGLTSGSGSFIKIGP 104
D +F+GL G GS +K P
Sbjct: 236 DPVFEGLDGGPGSLVKWNP 254
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
0.314 0.135 0.394
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: 5,833,784
Number of extensions: 476402
Number of successful extensions: 288
Number of sequences better than 10.0: 1
Number of HSP's gapped: 288
Number of HSP's successfully gapped: 29
Length of query: 120
Length of database: 10,937,602
Length adjustment: 83
Effective length of query: 37
Effective length of database: 7,256,220
Effective search space: 268480140
Effective search space used: 268480140
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: 42 (21.9 bits)
S2: 53 (24.2 bits)