RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781083|ref|YP_003065496.1| hypothetical protein
CLIBASIA_04925 [Candidatus Liberibacter asiaticus str. psy62]
(160 letters)
>gnl|CDD|162323 TIGR01371, met_syn_B12ind,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase. This model describes the
cobalamin-independent methionine synthase. A family of
uncharacterized archaeal proteins is homologous to the
C-terminal region of this family. That family is
excluded from this model but, along with this family,
belongs to pfam model pfam01717.
Length = 750
Score = 33.9 bits (78), Expect = 0.021
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 11/64 (17%)
Query: 67 WSERGDIINALDQDLQDVESIEVFEYLKTRLSDLEAHRRSMSFYFAKYPKKVGPSVIDVV 126
+SE +II ++ DV SIE LS + YP +GP V D+
Sbjct: 640 YSEFNEIIESIADLDADVISIEASRSDMELLSAFKNGF--------GYPNGIGPGVYDI- 690
Query: 127 YPHS 130
HS
Sbjct: 691 --HS 692
>gnl|CDD|179966 PRK05222, PRK05222,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase; Provisional.
Length = 758
Score = 31.2 bits (72), Expect = 0.13
Identities = 24/71 (33%), Positives = 28/71 (39%), Gaps = 28/71 (39%)
Query: 68 SERGDI---INALDQDLQDVESIEVFEYLKTR-----LSDLEAHRRSMSFYFAKYPKKVG 119
SE DI I ALD DV SIE +R L E YP ++G
Sbjct: 647 SEFNDIIDAIAALD---ADVISIET-----SRSDMELLDAFEDF---------GYPNEIG 689
Query: 120 PSVIDVVYPHS 130
P V D+ HS
Sbjct: 690 PGVYDI---HS 697
>gnl|CDD|185317 PRK15419, PRK15419, proline:sodium symporter PutP; Provisional.
Length = 502
Score = 28.8 bits (64), Expect = 0.73
Identities = 8/20 (40%), Positives = 15/20 (75%)
Query: 3 YLSVTWNDLVQVSILVFCFV 22
+L+V+W D VQ S+++F +
Sbjct: 180 FLAVSWTDTVQASLMIFALI 199
>gnl|CDD|180112 PRK05478, PRK05478, isopropylmalate isomerase large subunit;
Validated.
Length = 466
Score = 27.4 bits (62), Expect = 1.7
Identities = 16/42 (38%), Positives = 18/42 (42%), Gaps = 10/42 (23%)
Query: 96 RLSDLEAHRRSMSFYFAKYPK--KVGPSVIDVVYPHSHLVKE 135
R+ DL A A K KV P V +V P S LVK
Sbjct: 351 RIEDLRA--------AAAVVKGRKVAPGVRALVVPGSGLVKA 384
>gnl|CDD|178093 PLN02475, PLN02475,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase.
Length = 766
Score = 27.0 bits (60), Expect = 2.3
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 14/65 (21%)
Query: 67 WSERGDIINALDQDLQDVESIEVFEYLKTRLSD---LEAHRRSMSFYFAKYPKKVGPSVI 123
+S DII+++ DV +IE +R SD L R KY +GP V
Sbjct: 651 YSNFNDIIHSIIDMDADVITIE-----NSR-SDEKLLSVFREG-----VKYGAGIGPGVY 699
Query: 124 DVVYP 128
D+ P
Sbjct: 700 DIHSP 704
>gnl|CDD|162712 TIGR02121, Na_Pro_sym, sodium/proline symporter. This family
consists of the sodium/proline symporter (proline
permease) from a number of Gram-negative and
Gram-positive bacteria and from the archaeal genus
Methanosarcina. Using the related pantothenate permease
as an outgroup, candidate sequences from Bifidobacterium
longum and several from archaea are found to be outside
the clade defined by known proline permeases. These
sequences, scoring between 570 and -40, define the range
between trusted and noise cutoff scores.
Length = 487
Score = 26.6 bits (59), Expect = 3.1
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 3 YLSVTWNDLVQVSILVFCFV 22
+L+V+W D VQ ++ F V
Sbjct: 176 FLAVSWTDFVQGLLMFFALV 195
>gnl|CDD|152883 pfam12449, DUF3684, Protein of unknown function (DUF3684). This
domain family is found in eukaryotes, and is typically
between 1072 and 1090 amino acids in length.
Length = 1082
Score = 26.1 bits (58), Expect = 4.4
Identities = 12/54 (22%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 85 ESIEVFEYLKTRLSDLEAHR----RSMSF--YFAKYPKKVGPSVIDVVYPHSHL 132
++ ++FEYL +R+++L + + F + + G SV V +L
Sbjct: 829 DARKLFEYLASRVAELSPNDLARLGQAAIVPVFRRAGLEKGSSVRYVAPSQCYL 882
>gnl|CDD|182159 PRK09946, PRK09946, hypothetical protein; Provisional.
Length = 270
Score = 25.9 bits (57), Expect = 5.3
Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 21 FVSHFVQRKSFADVHEAL--ERY 41
F+ HF + S+AD+H AL E Y
Sbjct: 21 FLRHFPRGGSYADIHHALIEEGY 43
>gnl|CDD|185388 PRK15491, PRK15491, replication factor A; Provisional.
Length = 374
Score = 25.6 bits (56), Expect = 5.6
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 59 SSSVRRTYWSERGDIINALDQDLQDVESIEVFEYLKTRLSDLEAH 103
+ S+R T W + D+I D ++ S+ + Y K S +E +
Sbjct: 104 TGSIRLTLWDDLADLIKTGDIEVGK--SLNISGYAKEGYSGIEVN 146
>gnl|CDD|169939 PRK09517, PRK09517, multifunctional thiamine-phosphate
pyrophosphorylase/synthase/phosphomethylpyrimidine
kinase; Provisional.
Length = 755
Score = 25.7 bits (56), Expect = 6.2
Identities = 11/22 (50%), Positives = 12/22 (54%)
Query: 32 ADVHEALERYKKVARVVGPHIP 53
AD EAL R VV P+IP
Sbjct: 357 ADATEALRRLAVHVDVVTPNIP 378
>gnl|CDD|152889 pfam12455, Dynactin, Dynein associated protein. This domain family
is found in eukaryotes, and is approximately 280 amino
acids in length. The family is found in association with
pfam01302. There is a single completely conserved
residue E that may be functionally important. Dynactin
has been associated with Dynein, a kinesin protein which
is involved in organelle transport, mitotic spindle
assembly and chromosome segregation. Dynactin anchors
Dynein to specific subcellular structures.
Length = 274
Score = 25.3 bits (56), Expect = 6.5
Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 19/71 (26%)
Query: 86 SIEVFEYLKTRLSDLEAHRRSMSFYFAKYPKKVGPSVIDVVYPHSHLVKEDKVDEKNSSS 145
S+E+F + +LE R++ F+ I+ L+K+D++DE +
Sbjct: 146 SVELFLKIGGLYPELEPVERTLDFW------------IE-------LLKKDELDENECAD 186
Query: 146 ELKVDLNKLNA 156
EL+ + +
Sbjct: 187 ELQRSIAYFDH 197
>gnl|CDD|183009 PRK11169, PRK11169, leucine-responsive transcriptional regulator;
Provisional.
Length = 164
Score = 25.5 bits (56), Expect = 7.3
Identities = 13/39 (33%), Positives = 24/39 (61%), Gaps = 5/39 (12%)
Query: 72 DIINALDQDLQDVESIEV----FEYL-KTRLSDLEAHRR 105
+ NA Q L++++ + F+YL KTR+ D+ A+R+
Sbjct: 91 EQFNAAVQKLEEIQECHLVSGDFDYLLKTRVPDMSAYRK 129
>gnl|CDD|184978 PRK15017, PRK15017, cytochrome o ubiquinol oxidase subunit I;
Provisional.
Length = 663
Score = 25.3 bits (55), Expect = 8.2
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 19 FCFVSHFVQRKSFADVHEALERYKKVARVVGPHIPNSN 56
F V H +R +F ++ E E YK+ H+P ++
Sbjct: 552 FAVVPHVHERDAFWEMKEKGEAYKQPDHYEEIHMPKNS 589
>gnl|CDD|178540 PLN02954, PLN02954, phosphoserine phosphatase.
Length = 224
Score = 25.0 bits (55), Expect = 10.0
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 86 SIEVFEYLKTRLSDLEAHRRSMSFYFAKYPKKVGPSVIDVV 126
S+ E L RLS + + + K P ++ P + ++V
Sbjct: 53 SVPFEEALAARLSLFKPSLSQVEEFLEKRPPRLSPGIPELV 93
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.318 0.133 0.386
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,531,531
Number of extensions: 149103
Number of successful extensions: 350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 347
Number of HSP's successfully gapped: 25
Length of query: 160
Length of database: 5,994,473
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,136,185
Effective search space: 306077690
Effective search space used: 306077690
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 (21.7 bits)
S2: 53 (24.1 bits)