RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781020|ref|YP_003065433.1| isopentenyl pyrophosphate
isomerase [Candidatus Liberibacter asiaticus str. psy62]
(337 letters)
>gnl|CDD|180081 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase;
Provisional.
Length = 352
Score = 434 bits (1119), Expect = e-122
Identities = 152/329 (46%), Positives = 212/329 (64%), Gaps = 4/329 (1%)
Query: 1 MVNDRKIDHINIVCKDPGIDRNKKFFDDWHLIHRALPEISFDEVDPSVEFLGKKLSFPLL 60
+++RK +HI I K+ + FDD LIH ALPE+ D++D S EFLGKKLS P L
Sbjct: 5 QISNRKDEHIEIALKEDVEYKKTTGFDDVRLIHNALPELDLDDIDLSTEFLGKKLSAPFL 64
Query: 61 ISSMTGGNNKMIERINRNLAIAAEKTKVAMAVGSQRVMFSDHNAIKSFEL-RQYAPHTVL 119
I++MTGG+ K + INR LA AAE+ +AM VGSQR D SF + R+ AP +L
Sbjct: 65 INAMTGGSEKA-KEINRKLAEAAEELGIAMGVGSQRAALKDPELADSFSVVRKVAPDGLL 123
Query: 120 ISNLGAVQLNYDFGVQKAHQAVHVLGADGLFLHLNPLQEIIQPNGNTNFADLSSKIALLS 179
+NLGAVQL Y +GV++A +AV ++ AD L +HLNPLQE++QP G+ +F IA +
Sbjct: 124 FANLGAVQL-YGYGVEEAQRAVEMIEADALQIHLNPLQELVQPEGDRDFRGWLDNIAEIV 182
Query: 180 SAMDVPLLLKEVGCGLSSMDIELGLKSGIRYFDIAGRGGTSWSRIESHRDLESDIGIVFQ 239
SA+ VP+++KEVG G+S + +G++ D+AG GGTSW+ IE++R + + F
Sbjct: 183 SALPVPVIVKEVGFGISKETAKRLADAGVKAIDVAGAGGTSWAAIENYRARDDRLASYFA 242
Query: 240 DWGIPTPLSLEMARPYCNEAQFIASGGLRNGVDILKSIILGASLGGLASPFLKPAMDSS- 298
DWGIPT SL AR + IASGG+RNG+DI K++ LGA G+A PFLK A++
Sbjct: 243 DWGIPTAQSLLEARSLLPDLPIIASGGIRNGLDIAKALALGADAVGMAGPFLKAALEGGE 302
Query: 299 DAVVAAIESLRKEFIVSMFLLGTKRVQEL 327
+AV+ IE +E ++MFL G K + EL
Sbjct: 303 EAVIELIEQWIEELKIAMFLTGAKNIAEL 331
>gnl|CDD|162733 TIGR02151, IPP_isom_2, isopentenyl-diphosphate delta-isomerase,
type 2. Isopentenyl-diphosphate delta-isomerase (IPP
isomerase) interconverts isopentenyl diphosphate and
dimethylallyl diphosphate. This model represents the
type 2 enzyme. FMN, NADPH, and Mg2+ are required by this
form, which lacks homology to the type 1 enzyme
(TIGR02150). IPP is precursor to many compounds,
including enzyme cofactors, sterols, and isoprenoids.
Length = 333
Score = 354 bits (910), Expect = 2e-98
Identities = 146/333 (43%), Positives = 206/333 (61%), Gaps = 4/333 (1%)
Query: 5 RKIDHINIVCKDPGIDRNKKFFDDWHLIHRALPEISFDEVDPSVEFLGKKLSFPLLISSM 64
RK +HI + K FDD LIH ALPEI+ D++D + EFLGK+L P I++M
Sbjct: 2 RKDEHIELCLKQNVEYGGSTGFDDITLIHNALPEINLDDIDLTTEFLGKRLKAPFYINAM 61
Query: 65 TGGNNKMIERINRNLAIAAEKTKVAMAVGSQRVMFSDHNAIKSFE-LRQYAPHTVLISNL 123
TGG+ + +INRNLA AA + + M VGSQR D +FE +R+ AP+ LI+N+
Sbjct: 62 TGGSEEA-GKINRNLARAARELGIPMGVGSQRAALKDPETADTFEVVREEAPNGPLIANI 120
Query: 124 GAVQLNYDFGVQKAHQAVHVLGADGLFLHLNPLQEIIQPNGNTNFADLSSKIALLSSAMD 183
GA QL G ++A +A+ ++ AD L +HLN LQE++QP G+ NF KIA + S +
Sbjct: 121 GAPQLVE-GGPEEAQEAIDMIEADALAIHLNVLQELVQPEGDRNFKGWLEKIAEICSQLS 179
Query: 184 VPLLLKEVGCGLSSMDIELGLKSGIRYFDIAGRGGTSWSRIESHRDLESDIGIVFQDWGI 243
VP+++KEVG G+S +L +G+ D+AG GGTSW+++E++R S++ F DWGI
Sbjct: 180 VPVIVKEVGFGISKEVAKLLADAGVSAIDVAGAGGTSWAQVENYRAKGSNLASFFNDWGI 239
Query: 244 PTPLSLEMARPYCNEAQFIASGGLRNGVDILKSIILGASLGGLASPFLKPAMDSS-DAVV 302
PT SL R +A IASGGLR G+D+ K+I LGA G+A PFLK A+D +AV+
Sbjct: 240 PTAASLLEVRSDAPDAPIIASGGLRTGLDVAKAIALGADAVGMARPFLKAALDEGEEAVI 299
Query: 303 AAIESLRKEFIVSMFLLGTKRVQELYLNTALIR 335
IE + +E V+MFL G K + EL +I
Sbjct: 300 EEIELIIEELKVAMFLTGAKTIAELKKVPLVIS 332
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 38.5 bits (89), Expect = 0.003
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 265 GGLRNGVDILKSIILGASLGGLASPFL-KPAMDSSDAVVAAIESLRKEFIVSMFLLGTKR 323
GG+R G D+ K++ LGAS + P + A + V ++ LR EF ++M L G +
Sbjct: 285 GGVRRGTDVFKALALGASGIFIGRPVVFSLAAEGEAGVRKVLQMLRDEFELTMALSGCRS 344
Query: 324 VQELYLN 330
++E+ N
Sbjct: 345 LKEISRN 351
>gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional.
Length = 381
Score = 38.1 bits (89), Expect = 0.003
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 262 IASGGLRNGVDILKSIILGASLGGLASPFLKP-AMDSSDAVVAAIESLRKEFIVSMFLLG 320
+A G+RNG+D+++ I LGA L F+ A V ++ + KE V+M L G
Sbjct: 304 LADSGIRNGLDVVRMIALGADTVLLGRAFVYALAAAGQAGVANLLDLIEKEMRVAMTLTG 363
Query: 321 TKRVQEL 327
K + E+
Sbjct: 364 AKSISEI 370
>gnl|CDD|166134 PLN02493, PLN02493, probable peroxisomal (S)-2-hydroxy-acid
oxidase.
Length = 367
Score = 37.8 bits (87), Expect = 0.004
Identities = 36/159 (22%), Positives = 68/159 (42%), Gaps = 25/159 (15%)
Query: 175 IALLSSAMDVPLLLKEVGCGLSSMDIELGLKSGIRYFDIAGRGGTSWSRIESHRDLESDI 234
+ L + +P+L+K V L+ D + +++G ++ G R L+
Sbjct: 216 VQWLQTITKLPILVKGV---LTGEDARIAIQAGAAGIIVSNHGA---------RQLDY-- 261
Query: 235 GIVFQDWGIPTPLSL--EMARPYCNEAQFIASGGLRNGVDILKSIILGASLGGLASPFL- 291
+P +S E+ + GG+R G D+ K++ LGAS + P +
Sbjct: 262 --------VPATISALEEVVKATQGRIPVFLDGGVRRGTDVFKALALGASGIFIGRPVVF 313
Query: 292 KPAMDSSDAVVAAIESLRKEFIVSMFLLGTKRVQELYLN 330
A + V ++ LR EF ++M L G + ++E+ N
Sbjct: 314 SLAAEGEAGVRKVLQMLRDEFELTMALSGCRSLKEISRN 352
>gnl|CDD|178150 PLN02535, PLN02535, glycolate oxidase.
Length = 364
Score = 33.3 bits (76), Expect = 0.099
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 265 GGLRNGVDILKSIILGASLGGLASPFLKP-AMDSSDAVVAAIESLRKEFIVSMFLLGTKR 323
GG+R G D+ K++ LGA + P + A D V IE L+ E ++M L G
Sbjct: 285 GGVRRGTDVFKALALGAQAVLVGRPVIYGLAAKGEDGVRKVIEMLKDELEITMALSGCPS 344
Query: 324 VQEL 327
V+++
Sbjct: 345 VKDI 348
>gnl|CDD|162293 TIGR01302, IMP_dehydrog, inosine-5'-monophosphate dehydrogenase.
This model describes a rather tightly conserved cluster
of IMP dehydrogenase sequences, many of which are
characterized. The model excludes two related families
of proteins proposed also to be IMP dehydrogenases, but
without characterized members. These are related
families are the subject of separate models.
Length = 450
Score = 31.9 bits (73), Expect = 0.21
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 3/28 (10%)
Query: 262 IASGGLRNGVDILKSIILGAS---LGGL 286
IA GG+R DI+K++ GA LG L
Sbjct: 331 IADGGIRYSGDIVKALAAGADAVMLGSL 358
>gnl|CDD|185550 PTZ00314, PTZ00314, inosine-5'-monophosphate dehydrogenase;
Provisional.
Length = 495
Score = 31.5 bits (72), Expect = 0.35
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 254 PYCNEAQF--IASGGLRNGVDILKSIILGAS---LGGL 286
Y E IA GG++N DI K++ LGA LG L
Sbjct: 338 RYARERGVPCIADGGIKNSGDICKALALGADCVMLGSL 375
>gnl|CDD|180097 PRK05458, PRK05458, guanosine 5'-monophosphate oxidoreductase;
Provisional.
Length = 326
Score = 30.7 bits (70), Expect = 0.51
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 262 IASGGLRNGVDILKSIILGASL 283
IA GG+R DI KSI GA++
Sbjct: 205 IADGGIRTHGDIAKSIRFGATM 226
>gnl|CDD|183297 PRK11750, gltB, glutamate synthase subunit alpha; Provisional.
Length = 1485
Score = 30.2 bits (69), Expect = 0.81
Identities = 12/21 (57%), Positives = 17/21 (80%), Gaps = 1/21 (4%)
Query: 265 GGLRNGVDILKSIILGA-SLG 284
GGL+ G+D++K+ ILGA S G
Sbjct: 1074 GGLKTGLDVIKAAILGAESFG 1094
>gnl|CDD|130373 TIGR01306, GMP_reduct_2, guanosine monophosphate reductase,
bacterial. A deep split separates two families of GMP
reductase. The other (TIGR01305) is found in eukaryotic
and some proteobacterial lineages, including E. coli,
while this family is found in a variety of bacterial
lineages.
Length = 321
Score = 29.1 bits (65), Expect = 1.7
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 262 IASGGLRNGVDILKSIILGASLGGLASPF 290
IA GG+R DI KSI GAS+ + S F
Sbjct: 202 IADGGIRTHGDIAKSIRFGASMVMIGSLF 230
>gnl|CDD|183666 PRK12666, PRK12666, putative monovalent cation/H+ antiporter
subunit D; Reviewed.
Length = 528
Score = 27.9 bits (63), Expect = 3.7
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 164 GNTNFADLSSKIALLSSAMDVPLLLKEVGCGL 195
G N ADL+ +IA L +A D LL E G L
Sbjct: 187 GTLNMADLAQRIAQLPAA-DRALL--EAGAAL 215
>gnl|CDD|181521 PRK08649, PRK08649, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 368
Score = 27.9 bits (63), Expect = 4.3
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 262 IASGGLRNGVDILKSIILGASLGGLASPF 290
IA GG+ DI K+I GA L SP
Sbjct: 260 IADGGIGTSGDIAKAIACGADAVMLGSPL 288
>gnl|CDD|181033 PRK07565, PRK07565, dihydroorotate dehydrogenase 2; Reviewed.
Length = 334
Score = 27.5 bits (62), Expect = 4.5
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 258 EAQFIASGGLRNGVDILKSIILGASLGGLASPFLK 292
A A+ G+ + D++K ++ GA + +AS L+
Sbjct: 239 GADLAATTGVHDAEDVIKMLLAGADVVMIASALLR 273
>gnl|CDD|172978 PRK14507, PRK14507, putative bifunctional
4-alpha-glucanotransferase/malto-oligosyltrehalose
synthase; Provisional.
Length = 1693
Score = 27.4 bits (61), Expect = 5.5
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 17/71 (23%)
Query: 196 SSMDIELGLKSGIRYFDIA---GRGGT-SWSRIESHR---------DLESDIGIVFQDWG 242
LG++ G+ Y D+A RGG+ +WS E D + G QDWG
Sbjct: 392 GERAQALGMRLGL-YRDLAVGVDRGGSETWSHPELFANGASIGAPPDELNPKG---QDWG 447
Query: 243 IPTPLSLEMAR 253
+P LE+ R
Sbjct: 448 LPPFDPLELER 458
>gnl|CDD|163184 TIGR03211, catechol_2_3, catechol 2,3 dioxygenase. Members of this
family all are enzymes active as catechol 2,3
dioxygenase (1.13.11.2), although some members have
highly significant activity on catechol derivatives such
as 3-methylcatechol, 3-chlorocatechol, and
4-chlorocatechol (see Mars, et al.). This enzyme is also
called metapyrocatechase, as it performs a meta-cleavage
(an extradiol ring cleavage), in contrast to the
ortho-cleavage (intradiol ring cleavage)performed by
catechol 1,2-dioxygenase (EC 1.13.11.1), also called
pyrocatechase.
Length = 303
Score = 27.2 bits (61), Expect = 5.9
Identities = 8/27 (29%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 2 VNDRKIDHINIVCKDPGIDRNKKFFDD 28
V R++DH + +D + N +FF +
Sbjct: 141 VGARRLDHCLLYGED--VAENTRFFTE 165
>gnl|CDD|185115 PRK15193, PRK15193, outer membrane usher protein; Provisional.
Length = 876
Score = 27.2 bits (60), Expect = 6.2
Identities = 28/101 (27%), Positives = 33/101 (32%), Gaps = 11/101 (10%)
Query: 56 SFPLLISSMTGGNNKMIERINRNLAIAAEKTKVAMAVGSQRVMFS-DHNAIKSFELRQYA 114
+FP G LA V QR+ S AIKS R Y
Sbjct: 121 AFPAFKQLAKGAC--------PPLASIIPDASVTFDFNKQRLDISVPQIAIKS-SARGYI 171
Query: 115 PHTVLISNLGAVQLNYDF-GVQKAHQAVHVLGADGLFLHLN 154
P + A+ LNY F G H + D FL LN
Sbjct: 172 PPERWDEGINALLLNYSFSGANSIHSSADSDSGDSYFLGLN 212
>gnl|CDD|184075 PRK13478, PRK13478, phosphonoacetaldehyde hydrolase; Provisional.
Length = 267
Score = 27.1 bits (61), Expect = 7.3
Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 6/32 (18%)
Query: 6 KIDHINIVCKDPGIDRNKKFFDDWHLIHRALP 37
K DHI + K P + W + LP
Sbjct: 51 KWDHIRALLKMPRVAA------RWQAVFGRLP 76
>gnl|CDD|179435 PRK02506, PRK02506, dihydroorotate dehydrogenase 1A; Reviewed.
Length = 310
Score = 26.8 bits (60), Expect = 8.0
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 258 EAQFIASGGLRNGVDILKSIILGASL 283
Q I +GG++ G D + I+ GAS+
Sbjct: 241 SIQIIGTGGVKTGRDAFEHILCGASM 266
>gnl|CDD|130495 TIGR01428, HAD_type_II, 2-haloalkanoic acid dehalogenase, type II.
Note that the Type I HAD enzymes have not yet been fully
characterized, but clearly utilize a substantially
different catalytic mechanism and are thus unlikely to
be related.
Length = 198
Score = 26.5 bits (59), Expect = 9.0
Identities = 5/31 (16%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 53 KKLSFPLLISSMTGGNNKMIERINRNLAIAA 83
K+ + L I ++ G+ M++ + ++ +
Sbjct: 105 KERGYRLAI--LSNGSPAMLKSLVKHAGLDD 133
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
0.321 0.138 0.400
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,580,153
Number of extensions: 367894
Number of successful extensions: 716
Number of sequences better than 10.0: 1
Number of HSP's gapped: 707
Number of HSP's successfully gapped: 33
Length of query: 337
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 243
Effective length of database: 3,963,321
Effective search space: 963087003
Effective search space used: 963087003
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.7 bits)