RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781191|ref|YP_003065604.1| hypothetical protein
CLIBASIA_05490 [Candidatus Liberibacter asiaticus str. psy62]
(165 letters)
>gnl|CDD|151373 pfam10926, DUF2800, Protein of unknown function (DUF2800). This is
a family of uncharacterized proteins found in bacteria
and viruses. Some members of this family are annotated
as being Phi APSE P51-like proteins.
Length = 363
Score = 108 bits (272), Expect = 7e-25
Identities = 49/146 (33%), Positives = 79/146 (54%), Gaps = 11/146 (7%)
Query: 6 CRFCRAKPRCGALAVKALST----FSEHMQILSNRQLSQVMNVLPLIETWMKGVKEEALN 61
CRFC+AK C A A L+ F + L++ +L++++ L+E W K V+ AL+
Sbjct: 215 CRFCKAKATCRARAQAVLNLAKYDFEDPTLDLTDEELAELLEKADLLEKWAKDVEAYALD 274
Query: 62 VLSSGEDLPNYELKEGRKGSRTYNNDNQVEQLLMRE-LGDEA-YNRTLLSPTETEQLVKR 119
+G+++P Y+L EGR +R + ++ V L L DE Y + L+SPT+ E+L+ +
Sbjct: 275 EARNGKEVPGYKLVEGR-SNRKWTDEEAVAAALKAAGLKDEDIYKKKLISPTQAEKLLGK 333
Query: 120 KKVSETTWEQLQKFITRKDGKQVIVP 145
KK E L I + GK +VP
Sbjct: 334 KKFKEL----LGALIVKPPGKPTLVP 355
>gnl|CDD|150843 pfam10232, Med8, Mediator of RNA polymerase II transcription
complex subunit 8. Arc32, or Med8, is one of the
subunits of the Mediator complex of RNA polymerase II.
The region conserved contains two alpha helices
putatively necessary for binding to other subunits
within the core of the Mediator complex. The N-terminus
of Med8 binds to the essential core Head part of
Mediator and the C-terminus hinges to Med18 on the
non-essential part of the Head that also includes Med20.
Length = 226
Score = 30.6 bits (69), Expect = 0.19
Identities = 19/85 (22%), Positives = 32/85 (37%), Gaps = 5/85 (5%)
Query: 44 VLPLIETWMKGVKEEALNVLSSGEDLPNYELKEGRKGSRTYNNDNQVEQLLMRELGDEAY 103
P +E WMK +++A N E+ ++ N ++V L E E+
Sbjct: 99 PDPEVEEWMKQARQKAENSTKDTAAKQEVEIDILQQNKEVSNWLDKV-TKLREEWEFESS 157
Query: 104 NRT----LLSPTETEQLVKRKKVSE 124
+R +T QLV K +
Sbjct: 158 HRVEIEQTSEEEDTNQLVAAVKDGK 182
>gnl|CDD|151744 pfam11303, DUF3105, Protein of unknown function (DUF3105). Some
members in this family of proteins are annotated as
membrane proteins however this cannot be confirmed.
Currently no function is known.
Length = 130
Score = 29.6 bits (67), Expect = 0.38
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 9/54 (16%)
Query: 83 TYN---NDNQVEQLLMRELGDEAYNRTLLSPTETEQLVKRKKVSETTWEQLQKF 133
TY+ ++VE+L + L R LLSP V+ T W + +
Sbjct: 55 TYDPDLPPDEVEKL--KALAAGCLPRVLLSPYPG----LDSPVALTAWGRQLEL 102
>gnl|CDD|184618 PRK14318, glmM, phosphoglucosamine mutase; Provisional.
Length = 448
Score = 27.2 bits (61), Expect = 2.2
Identities = 12/23 (52%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 96 RELGDEAYNRTLLSPTETEQLVK 118
ELGD R LL P+ TE LV+
Sbjct: 401 AELGDTG--RVLLRPSGTEPLVR 421
>gnl|CDD|161897 TIGR00474, selA, seryl-tRNA(sec) selenium transferase. In
bacteria, the incorporation of selenocysteine as the
21st amino acid, encoded by TGA, requires several
elements: SelC is the tRNA itself, SelD acts as a donor
of reduced selenium, SelA modifies a serine residue on
SelC into selenocysteine, and SelB is a
selenocysteine-specific translation elongation factor.
3-prime or 5-prime non-coding elements of mRNA have been
found as probable structures for directing
selenocysteine incorporation. This model describes SelA.
This model excludes homologs that appear to differ in
function from Frankia alni, Helicobacter pylori,
Methanococcus jannaschii and other archaea, and so on.
Length = 454
Score = 26.8 bits (60), Expect = 2.6
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 72 YELKEGRKGSRTYNNDNQVEQLLMRELGDEA 102
Y+L+ G++GSR + VE LL G E
Sbjct: 113 YDLETGKRGSR----YSHVEGLLCELTGAED 139
>gnl|CDD|106194 PRK13232, nifH, nitrogenase reductase; Reviewed.
Length = 273
Score = 26.9 bits (59), Expect = 2.8
Identities = 19/95 (20%), Positives = 46/95 (48%), Gaps = 16/95 (16%)
Query: 81 SRTYNNDNQVEQLLMRELGDEAYNRTLLSPTETEQLVKRKKVSETT-------WEQLQKF 133
SR + + ++ + ++LG + L+ + +V+R +++ T Q +++
Sbjct: 183 SRNVDGERELLEAFAKKLGSQ-----LIHFVPRDNIVQRAEINRKTVIDFDPESNQAKEY 237
Query: 134 ITRKDGKQ----VIVPCDLPVNHLKANISEFSVLK 164
+T Q ++VP LP+ L+A + EF +++
Sbjct: 238 LTLAHNVQNNDKLVVPTPLPMEELEAMMVEFGIVE 272
>gnl|CDD|180894 PRK07226, PRK07226, fructose-bisphosphate aldolase; Provisional.
Length = 267
Score = 26.7 bits (60), Expect = 3.1
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 130 LQKFITRKDGKQVIVPCD 147
L++ R+ G+ VIVP D
Sbjct: 10 LERIFNRRTGRTVIVPMD 27
>gnl|CDD|177868 PLN02222, PLN02222, phosphoinositide phospholipase C 2.
Length = 581
Score = 26.5 bits (58), Expect = 3.4
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 26 FSEHMQILSNRQLSQVMNVLPLIETWMKGVKEEALNVL-SSGED 68
F+ H L+ QLS + +P+I+ KGV+ L++ +S +D
Sbjct: 115 FTGHNSYLTGNQLSSDCSEVPIIDALKKGVRVIELDIWPNSDKD 158
>gnl|CDD|178827 PRK00053, alr, alanine racemase; Reviewed.
Length = 363
Score = 26.3 bits (59), Expect = 4.0
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 123 SETTWEQLQKFITRKDGKQVIVPCDLPVNHLKAN 156
+ T +QL +F + + P+ HL AN
Sbjct: 170 NSYTEQQLNRF---EAALAGLPGKGKPLRHL-AN 199
>gnl|CDD|182335 PRK10252, entF, enterobactin synthase subunit F; Provisional.
Length = 1296
Score = 26.2 bits (58), Expect = 4.0
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 24/76 (31%)
Query: 41 VMNVLPLIETWMKGVKEEALNVLSSGEDLP------NYELKEGRKGSRTYNNDNQVEQLL 94
V+NVLPL ++ +++ E LP +LK+ R+ R Y EQ++
Sbjct: 293 VLNVLPL-----------RVH-IAAQETLPELATRLAAQLKKMRRHQR-Y----DAEQIV 335
Query: 95 MRELGDEAYNRTLLSP 110
R+ G A + L P
Sbjct: 336 -RDSGRAAGDEPLFGP 350
>gnl|CDD|131231 TIGR02176, pyruv_ox_red, pyruvate:ferredoxin (flavodoxin)
oxidoreductase, homodimeric. This model represents a
single chain form of pyruvate:ferredoxin (or flavodoxin)
oxidoreductase. This enzyme may transfer electrons to
nitrogenase in nitrogen-fixing species. Portions of this
protein are homologous to gamma subunit of the four
subunit pyruvate:ferredoxin (flavodoxin) oxidoreductase.
Length = 1165
Score = 25.9 bits (57), Expect = 4.9
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 17 ALAVKALSTFSEHMQILSNRQLSQVM 42
A+A ALS F +H +++ RQ M
Sbjct: 111 AIAAHALSIFGDHQDVMAARQTGFAM 136
>gnl|CDD|119297 pfam10777, YlaC, Extracytoplasmic function sigma factor YlaC.
YlaC, regulated by YlaA, is important in oxidative
stress resistance. It contributes to hydrogen peroxide
resistance in Bacillus subtilis.
Length = 156
Score = 25.8 bits (57), Expect = 6.0
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 101 EAYNRTLLSPTETEQLVKRKKVSETTWEQLQKFITRK 137
E YN +S ++++ V + QL+K I K
Sbjct: 103 EWYNTRAVSQQLIDEILNSPNVPDEQKAQLKKIIATK 139
>gnl|CDD|166345 PLN02704, PLN02704, flavonol synthase.
Length = 335
Score = 25.1 bits (55), Expect = 8.9
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 51 WMKGVKEEALNVLSSGEDLPNYELKEGRKG 80
+++GV ++ LS G L ELKE G
Sbjct: 165 YLRGVADKLFKTLSLGLGLEEDELKEAVGG 194
>gnl|CDD|177331 PHA02004, PHA02004, capsid protein.
Length = 332
Score = 25.2 bits (55), Expect = 9.4
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 90 VEQLLMRELGDEAYNR--TLLSPTETEQLVKRKKV 122
VE L+ R+LGD Y+ TL+SP L++ K+
Sbjct: 182 VETLIKRDLGDAVYSEGLTLVSPRIFSLLLEHDKL 216
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
0.315 0.130 0.371
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,541,360
Number of extensions: 147800
Number of successful extensions: 346
Number of sequences better than 10.0: 1
Number of HSP's gapped: 343
Number of HSP's successfully gapped: 20
Length of query: 165
Length of database: 5,994,473
Length adjustment: 86
Effective length of query: 79
Effective length of database: 4,136,185
Effective search space: 326758615
Effective search space used: 326758615
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 (24.3 bits)