RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy489
(99 letters)
>gnl|CDD|152787 pfam12352, V-SNARE_C, Snare region anchored in the vesicle
membrane C-terminus. Within the SNARE proteins
interactions in the C-terminal half of the SNARE helix
are critical to the driving of membrane fusion; whereas
interactions in the N-terminal half of the SNARE domain
are important for promoting priming or docking of the
vesicle pfam05008.
Length = 66
Score = 44.9 bits (107), Expect = 6e-08
Identities = 22/46 (47%), Positives = 29/46 (63%)
Query: 51 EEIERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRLH 96
E + R L+ +RIA ET I +L+DL SQRETL+R R +LH
Sbjct: 1 ERLLREHDRLKNSHRIADETISIGQAILEDLHSQRETLKRARNKLH 46
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 30.3 bits (69), Expect = 0.11
Identities = 10/41 (24%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 35 STNINEEQSQR---LLDTSEEIERTGKHLETGYRIAIETEK 72
++EE+S+R ++D + +E G +E R+ +K
Sbjct: 391 KEGLSEEESRRWAEIIDAAINLEHIGDIIE---RLLELADK 428
>gnl|CDD|197699 smart00397, t_SNARE, Helical region found in SNAREs. All
alpha-helical motifs that form twisted and parallel
four-helix bundles in target soluble
N-ethylmaleimide-sensitive factor (NSF) attachment
protein (SNAP) receptor proteins. This motif found in
"Q-SNAREs".
Length = 66
Score = 27.2 bits (61), Expect = 0.54
Identities = 12/45 (26%), Positives = 19/45 (42%)
Query: 51 EEIERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRL 95
E + LE + E ++I D+ +LE Q E L R +
Sbjct: 5 AREEERDEELEQLEKSIQELKQIFLDMGTELEEQGEQLDRIEDNV 49
>gnl|CDD|236454 PRK09288, purT, phosphoribosylglycinamide formyltransferase 2;
Validated.
Length = 395
Score = 28.2 bits (64), Expect = 0.56
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 69 ETEKIATDVLKDLESQ 84
E E IATD L +LE +
Sbjct: 82 EIEAIATDALVELEKE 97
>gnl|CDD|184143 PRK13561, PRK13561, putative diguanylate cyclase; Provisional.
Length = 651
Score = 27.8 bits (62), Expect = 0.84
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 66 IAIETEKIATDVLKDLESQRETLQRTR 92
I ET + VLK E+QRE L T
Sbjct: 264 ITCETLRDTAGVLK--EAQREILLLTL 288
>gnl|CDD|219286 pfam07072, DUF1342, Protein of unknown function (DUF1342). This
family consists of several hypothetical bacterial
proteins of around 250 residues in length. Members of
this family are often known as YacF after the
Escherichia coli protein. The function of this family
is unknown.
Length = 211
Score = 27.5 bits (62), Expect = 0.89
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 75 TDVLKDLESQRETLQRTRTRLH 96
+++LKDLE QR+TL + R
Sbjct: 43 SELLKDLERQRQTLLKWRGNPG 64
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 27.0 bits (60), Expect = 1.4
Identities = 22/89 (24%), Positives = 39/89 (43%), Gaps = 1/89 (1%)
Query: 6 PKKDQNKINVVT-CKTESGVEYHVEYFSENSTNINEEQSQRLLDTSEEIERTGKHLETGY 64
PK+ +NKIN + VE H E + +I + L+ E+ER K +G
Sbjct: 281 PKEIKNKINKYAFSGGQDTVEEHRELGANLEVDIPWKYLNFFLEDDAELERIKKEYGSGR 340
Query: 65 RIAIETEKIATDVLKDLESQRETLQRTRT 93
+ E +K +VL ++ + + + T
Sbjct: 341 MLTGEVKKRLIEVLTEIVERHQRARAAVT 369
>gnl|CDD|235389 PRK05287, PRK05287, hypothetical protein; Provisional.
Length = 250
Score = 26.7 bits (60), Expect = 2.1
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 75 TDVLKDLESQRETLQ 89
+D+LK+LE QR+ LQ
Sbjct: 61 SDLLKELERQRQKLQ 75
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 26.3 bits (58), Expect = 2.5
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 46 LLDTSEEIERTGKHL-ETGYRIAIETEKIATDVLKDLESQRETLQRTR 92
LLD S EIE+ L G+R + DV +D S ++R +
Sbjct: 35 LLDISPEIEKLADELCGRGHRCT----AVVADV-RDPASVAAAIKRAK 77
>gnl|CDD|99865 cd06112, citrate_synt_like_1_1, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism.
Length = 373
Score = 26.2 bits (58), Expect = 3.0
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 46 LLDTSEEIERTGKHLETGYRIAIETEKIATDVL 78
L +E++ L Y IA+E E++ ++L
Sbjct: 271 LQKLAEDLFAKMGELSKLYEIALEVERLCEELL 303
>gnl|CDD|226948 COG4582, COG4582, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 244
Score = 25.9 bits (57), Expect = 4.1
Identities = 8/21 (38%), Positives = 16/21 (76%)
Query: 69 ETEKIATDVLKDLESQRETLQ 89
E ++ T++LK+L+ Q++ LQ
Sbjct: 52 ERGEVRTELLKELDRQQQKLQ 72
>gnl|CDD|215637 PLN03223, PLN03223, Polycystin cation channel protein; Provisional.
Length = 1634
Score = 25.7 bits (56), Expect = 4.7
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 37 NINEEQSQRLLDTSEEIERTGKHL--ETGYRIAIETEKIATDVLKDLESQRETLQRTRTR 94
N+ + + + L T++EI++ L + G E + DVL E + + LQ++ R
Sbjct: 1533 NVGKGKKKETLATADEIDQAAHMLMDQVGQVPDDEDDDEDGDVL---EKEVDQLQQSLER 1589
Query: 95 L 95
L
Sbjct: 1590 L 1590
>gnl|CDD|233699 TIGR02050, gshA_cyan_rel, carboxylate-amine ligase, YbdK family.
This family represents a division of a larger family,
the other branch of which is predicted to act as
glutamate--cysteine ligase (the first of two enzymes in
glutathione biosynthesis) in the cyanobacteria. Species
containing this protein, however, are generally not
believe to make glutathione, and the function is
unknown.
Length = 287
Score = 25.8 bits (57), Expect = 4.8
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 73 IATDVLKDLESQRETLQRTRTRL 95
+AT V L ++ R RL
Sbjct: 49 LATPVCTTLAEAAAQIRAVRARL 71
>gnl|CDD|225286 COG2430, COG2430, Uncharacterized conserved protein [Function
unknown].
Length = 236
Score = 25.1 bits (55), Expect = 7.3
Identities = 7/39 (17%), Positives = 12/39 (30%)
Query: 57 GKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRL 95
G L +R+ I+T D R ++
Sbjct: 3 GYPLLEDFRLEQGGISISTARDGDYYYYRRVDGGEVEKV 41
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 25.1 bits (55), Expect = 7.4
Identities = 9/54 (16%), Positives = 24/54 (44%)
Query: 36 TNINEEQSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQ 89
T++ E+ + ++ E +G + +G R ++ ++AT ++ E
Sbjct: 198 TDVAEDSAATIVRLVREFRASGDEITSGLRASLMIAEVATQQDIPVDVDDEDFV 251
>gnl|CDD|222629 pfam14257, DUF4349, Domain of unknown function (DUF4349). This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 282 and
353 amino acids in length. There is a single completely
conserved residue D that may be functionally important.
Length = 262
Score = 24.9 bits (55), Expect = 9.0
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 13/57 (22%)
Query: 43 SQRLLDTSEEIERTGKHLETGYRIAIETEKI-ATDV---LKDLESQRETLQRTRTRL 95
+ R +E+ GK + + I A DV DLE++ + L+ + RL
Sbjct: 104 ADRFDAFLDELAGLGK---------VTSRSISAEDVTEQYVDLEARLKALRASEERL 151
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
0.310 0.126 0.336
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,710,942
Number of extensions: 383570
Number of successful extensions: 421
Number of sequences better than 10.0: 1
Number of HSP's gapped: 420
Number of HSP's successfully gapped: 53
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.1 bits)