RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780224|ref|YP_003064637.1| hypothetical protein
CLIBASIA_00545 [Candidatus Liberibacter asiaticus str. psy62]
(382 letters)
>gnl|CDD|34910 COG5330, COG5330, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 364
Score = 125 bits (316), Expect = 2e-29
Identities = 87/320 (27%), Positives = 139/320 (43%), Gaps = 1/320 (0%)
Query: 1 MSVQSFIKWAKNAKLQERISIARILGRTWCMEELLDQEKDSLVLAMMHLLDDPSSRVRLS 60
+ Q I+ + A ER AR+L L ++ LLDD S VR
Sbjct: 7 STDQDLIRLLEEASSGERALAARVLAFASLQRPLSREDMRQFEDLARPLLDDSSEEVRRE 66
Query: 61 LARAIALSDTAPKHVVLALSEDHPDVSGTIILHSPVLKDNDLVDLIGRGNKLTSIFVASR 120
LA A+A +TAP+ + AL+ED ++ +++ SP L D+DLVD+ R + +A R
Sbjct: 67 LAAALAQCETAPRALARALAEDPISIAAPLLIRSPALTDDDLVDIARRQGPAHARAIARR 126
Query: 121 HKLSHVVVENLIETGCVDNIVALLGNKSVFLSNSLLMQIVERFCHDASIRNLLSLRTDLS 180
LS +V++ L+E G + ++ LL N + LS L ++ +R + ++R R L
Sbjct: 127 PSLSPLVIDALVERGDEEEVLVLLENDAAPLSPYALQRVADRAAAEPALRQAAVDREALP 186
Query: 181 LKARYLLMKSVCNVLSQSKIVQKSITFRRTQILFEESMRVGILEMISHVRDVQALRELVD 240
L+AR L V L S +V+ I+ R L + R + + V
Sbjct: 187 LRARIELAARVGERLRDSILVKAQISEARAAELVRFA-RERAAILFAAALADALDIRFVA 245
Query: 241 LLHDDGQLTPALLIYAIMIGAIDFVSVILANIAEYSTDRVYSILSTGGFHVICALYELVG 300
L L+PALL A+ + F L ++A + RV I G H + A+
Sbjct: 246 ALRIMLSLSPALLAAALRSLGLSFFEAALVDLAGLPSHRVRRIGRGGRPHALRAILRTAA 305
Query: 301 LSPEISEIFVEATMIWRELA 320
L + F + R+ A
Sbjct: 306 LDERVRSWFRADALELRDHA 325
>gnl|CDD|33613 COG3820, COG3820, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 230
Score = 32.0 bits (72), Expect = 0.27
Identities = 15/59 (25%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 52 DPSSRVRLSLARAIALSDT---APKHVVLALSEDHPDVSGTIILHSPVLKDNDLVDLIG 107
DP+ R+++ + + L ++ P++ ++ +D PD ++ + P LKD + LIG
Sbjct: 71 DPNYRLKILSSPKVELPESKKKGPRYTPVSRRQDRPDAILWLLRNHPELKDAQISKLIG 129
>gnl|CDD|31162 COG0820, COG0820, Predicted Fe-S-cluster redox enzyme [General
function prediction only].
Length = 349
Score = 29.9 bits (67), Expect = 1.2
Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 62 ARAIALSDTAPKHVVLALSEDHPDVSGTIILHSPVLKDNDLVDLIGRGNKLTSI 115
R I +S + + L+++ V+ I LH+P +++L D + NK I
Sbjct: 188 KRRITVSTSGIVPRIRKLADEQLGVALAISLHAP---NDELRDQLMPINKKYPI 238
>gnl|CDD|34181 COG4533, COG4533, ABC-type uncharacterized transport system,
periplasmic component [General function prediction
only].
Length = 564
Score = 29.5 bits (66), Expect = 1.5
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 106 IGRGNKLTSIFVASRHKLSHVVVENLIETGCVDNIVALLGNK 147
GRG + F+ + L + E L+E G + + LL
Sbjct: 59 AGRGKRSRLTFLRTPEALLLQLAEKLLEQGKIGQALQLLQLD 100
>gnl|CDD|32412 COG2231, COG2231, Uncharacterized protein related to Endonuclease
III [DNA replication, recombination, and repair].
Length = 215
Score = 27.9 bits (62), Expect = 4.3
Identities = 22/98 (22%), Positives = 36/98 (36%), Gaps = 20/98 (20%)
Query: 232 VQALRELVDLLHDDGQLTPALLIYAIMIGAI-------DFVSVILANIAEY--------- 275
+ +EL+ L D G PA I+IGAI V L N+
Sbjct: 9 TKIYKELLRLYGDQGWW-PADNKDEIIIGAILTQNTSWKNVEKALENLKNEGILNLKKIL 67
Query: 276 --STDRVYSILSTGGFHVICALYELVGLSPEISEIFVE 311
+ + ++ GF+ A L LS +++ F+
Sbjct: 68 KLDEEELAELIRPSGFYNQKAKR-LKALSKNLAKFFIN 104
>gnl|CDD|34260 COG4641, COG4641, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 373
Score = 28.0 bits (62), Expect = 4.8
Identities = 21/93 (22%), Positives = 34/93 (36%), Gaps = 4/93 (4%)
Query: 277 TDRVYSILSTGGFHVICALYELVGLSPEISEIFVE---ATMIWRELAVGSTVMEPGIIAE 333
T+RV+ I GGF + +L +I V + + + + E IAE
Sbjct: 277 TNRVFEIAGCGGFLITDYWKDLEKFFKPGKDIIVYQDSKDLKEKLKYLLNHPDERKEIAE 336
Query: 334 KLLERMRKRNISGLPAGELLEMVERIYLDVNRR 366
ER+ R+ +LL + I R
Sbjct: 337 CAYERVLARHTYEERIFKLLNEIASI-NIRAGR 368
>gnl|CDD|48074 cd01972, Nitrogenase_VnfE_like, Nitrogenase_VnfE_like: VnfE subunit
of the VnfEN complex_like. This group in addition to
VnfE contains a subset of the alpha subunit of the
nitrogenase MoFe protein and NifE-like proteins. The
nitrogenase enzyme system catalyzes the ATP-dependent
reduction of dinitrogen to ammonia. NifEN participates
in the synthesis of the iron-molybdenum cofactor
(FeMoco) of MoFe protein of the
molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur
containing precursor of the FeMoco) from NifB is
transferred to NifEN where it is further processed to
FeMoco. VnfEN may similarly be a scaffolding protein
for the iron-vanadium cofactor (FeVco) of the
vanadium-dependent (V)-nitrogenase. NifE and NifN are
essential for the Mo-nitrogenase, VnfE and VnfN are not
essential for the V-nitrogenase. NifE and NifN can
substitute when the vnfEN genes are inactivated..
Length = 426
Score = 27.6 bits (61), Expect = 6.1
Identities = 18/82 (21%), Positives = 34/82 (41%), Gaps = 8/82 (9%)
Query: 21 IARILGRTWCMEELLDQEKDSLVLAMMHLLDDPSSRVRLSLARAIALSDTAPKHVVLA-- 78
IA++LG E ++++E + V + L R L +AI + A H+++A
Sbjct: 259 IAKVLGMEAEAEAVIEREHE-RVAPEIEEL-----RKALKGKKAIVETGAAYGHLLIAVL 312
Query: 79 LSEDHPDVSGTIILHSPVLKDN 100
+V ++ H D
Sbjct: 313 RELGFGEVPVVLVFHHDPTYDR 334
>gnl|CDD|176202 cd08240, 6_hydroxyhexanoate_dh_like, 6-hydroxyhexanoate
dehydrogenase. 6-hydroxyhexanoate dehydrogenase, an
enzyme of the zinc-dependent alcohol dehydrogenase-like
family of medium chain dehydrogenases/reductases
catalyzes the conversion of 6-hydroxyhexanoate and
NAD(+) to 6-oxohexanoate + NADH and H+.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding
domains, at the active site, and coenzyme binding
induces a conformational closing of this cleft. Coenzyme
binding typically precedes and contributes to substrate
binding. In human ADH catalysis, the zinc ion helps
coordinate the alcohol, followed by deprotonation of a
histidine, the ribose of NAD, a serine, then the
alcohol, which allows the transfer of a hydride to NAD+,
creating NADH and a zinc-bound aldehyde or ketone. In
yeast and some bacteria, the active site zinc binds an
aldehyde, polarizing it, and leading to the reverse
reaction.
Length = 350
Score = 27.2 bits (61), Expect = 7.0
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 6/37 (16%)
Query: 260 GAIDFVSVILANIAEYSTDRVYSILSTGGFHVICALY 296
IDFV+ + + IL+ GG V+ L+
Sbjct: 246 AVIDFVN------NSATASLAFDILAKGGKLVLVGLF 276
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.324 0.137 0.379
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,365,316
Number of extensions: 235350
Number of successful extensions: 884
Number of sequences better than 10.0: 1
Number of HSP's gapped: 882
Number of HSP's successfully gapped: 25
Length of query: 382
Length of database: 6,263,737
Length adjustment: 96
Effective length of query: 286
Effective length of database: 4,189,273
Effective search space: 1198132078
Effective search space used: 1198132078
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 58 (26.1 bits)