RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781165|ref|YP_003065578.1| pyridoxamine 5'-phosphate
oxidase [Candidatus Liberibacter asiaticus str. psy62]
(201 letters)
>gnl|CDD|30608 COG0259, PdxH, Pyridoxamine-phosphate oxidase [Coenzyme
metabolism].
Length = 214
Score = 236 bits (604), Expect = 3e-63
Identities = 96/189 (50%), Positives = 125/189 (66%), Gaps = 2/189 (1%)
Query: 13 FTLLSQWMQEAQSSESHDPHAVVLATADRMGFPNARVVLIKHFDQEGFVFYTNSQSPKGK 72
TL +W++EA +E ++P+A+ LAT D G P++R+VL+K D+ GFVFYTN S KG+
Sbjct: 28 LTLFRRWLEEAIRAEVNEPNAMTLATVDEQGRPSSRIVLLKELDERGFVFYTNYGSRKGR 87
Query: 73 EILENPKASLCFHWKSLARQLRVRGLVEKYCDLASDHYYASRPRESKIGAWASKQSQKMP 132
E+ NP A+L F WK L RQ+RV G VE+ D SD Y+ASRPR S+IGAWASKQS+ +
Sbjct: 88 ELAANPYAALLFPWKELERQVRVEGRVERVSDEESDAYFASRPRGSQIGAWASKQSRPIA 147
Query: 133 SLDDLQKSVQRYSSFYQEKEIPRPVWWHGFRICPLSIEFWSERPYRLHDRLLFSRETIAG 192
S L+ V ++ + + EIPRP W GFRI P SIEFW RP RLHDRL + R+ G
Sbjct: 148 SRAALEAKVAELTAKFADGEIPRPPHWGGFRIVPESIEFWQGRPSRLHDRLRYRRD--DG 205
Query: 193 KWTQFLLYP 201
W L P
Sbjct: 206 GWKIERLAP 214
>gnl|CDD|37797 KOG2586, KOG2586, KOG2586, Pyridoxamine-phosphate oxidase [Coenzyme
transport and metabolism].
Length = 228
Score = 167 bits (424), Expect = 2e-42
Identities = 81/192 (42%), Positives = 124/192 (64%), Gaps = 3/192 (1%)
Query: 13 FTLLSQWMQEA-QSSESHDPHAVVLATADRMGFPNARVVLIKHFDQEGFVFYTN-SQSPK 70
L +W QEA + + + +A+ L+TAD+ G ++R+VL+K D +GFVFYTN S K
Sbjct: 37 VELFKKWFQEAAKDPDIGEINAMTLSTADKDGRVSSRMVLLKGLDHDGFVFYTNYGTSRK 96
Query: 71 GKEILENPKASLCFHWKSLARQLRVRGLVEKYCDLASDHYYASRPRESKIGAWASKQSQK 130
GK++ ENP A+L F+W+ L RQ+RV G+VEK ++ Y+ SRPR S+IGAWAS QS+
Sbjct: 97 GKDLQENPNAALLFYWEDLNRQVRVEGIVEKLPREEAEAYFKSRPRASQIGAWASPQSEV 156
Query: 131 MPSLDDLQKSVQRYSSFYQEKE-IPRPVWWHGFRICPLSIEFWSERPYRLHDRLLFSRET 189
+P ++L+K + + + +++ IP+P W G+R+ P EFW +P RLHDR+++ R T
Sbjct: 157 IPDREELEKKDEELTELFGDEQSIPKPDSWGGYRLVPQEFEFWQGQPDRLHDRIVYRRLT 216
Query: 190 IAGKWTQFLLYP 201
+ W L P
Sbjct: 217 VDEDWKLVRLAP 228
>gnl|CDD|144728 pfam01243, Pyridox_oxidase, Pyridoxamine 5'-phosphate oxidase.
Length = 87
Score = 90.4 bits (225), Expect = 3e-19
Identities = 31/74 (41%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 29 HDPHAVVLATADRMGFPNARVVLIKH-FDQEGFVFYTNSQSPKGKEILENPKASLCFHWK 87
+P+A VLAT D G PN V K+ FD+ G F TN S K + + ENP+ +L F W
Sbjct: 9 AEPNAGVLATVDADGRPNVSPVGFKYGFDRVGIYFATNYDSRKARNLRENPRVALLFGWP 68
Query: 88 SLARQLRVRGLVEK 101
L R +R+ G E
Sbjct: 69 ELRRGVRIEGTAEI 82
>gnl|CDD|33661 COG3871, COG3871, Uncharacterized stress protein (general stress
protein 26) [General function prediction only].
Length = 145
Score = 39.5 bits (92), Expect = 6e-04
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 27 ESHDPHAVVLATADRMGFPNARVVLIKHFDQEG-FVFYTNSQSPKGKEILENPKASLCFH 85
E +LAT G P++R + H +G F+TN S K +EI +NPK + F
Sbjct: 15 EGSKVG--MLATVQENGHPHSRPMTFNHDGPKGTIWFFTNKDSRKVEEIKKNPKVCVLFG 72
Query: 86 WKSLARQLRVRGLVE 100
+ + V G E
Sbjct: 73 YDDHDAFVEVSGTAE 87
>gnl|CDD|30419 COG0070, GltB, Glutamate synthase domain 3 [Amino acid transport
and metabolism].
Length = 301
Score = 31.5 bits (71), Expect = 0.17
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 58 EGFVFYTNSQSPKGKEILENPKASLCFHWKSLARQLRVRGLVEKYCDLA 106
E V YT S K KEILEN + K R+ R L+ + A
Sbjct: 247 EEHVEYTGS--EKAKEILENWELYEEKFVKVKPREYRPFLLLNADAEAA 293
>gnl|CDD|34620 COG5015, COG5015, Uncharacterized conserved protein [Function
unknown].
Length = 132
Score = 29.1 bits (65), Expect = 0.88
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 34 VVLATADRMGFPNARVVLIKHFDQEGFVFYTNSQSPKGKEILENPKASLCFHWKSLARQL 93
V LAT + G P R + + E F T + P K+I +NP+ C K +
Sbjct: 14 VALATVED-GKPRVRPFQVMFVEGEKLYFCTANTKPYYKQIKKNPEVEFCGMDKD-GVMV 71
Query: 94 RVRGLVE 100
R+RG E
Sbjct: 72 RLRGRAE 78
>gnl|CDD|34402 COG4792, EscU, Type III secretory pathway, component EscU
[Intracellular trafficking and secretion].
Length = 349
Score = 28.7 bits (64), Expect = 1.2
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 9/52 (17%)
Query: 49 VVLIKHFDQEGFVFYTNSQSPKGKEILENPKASLCFHWKSLARQLRVRGLVE 100
++ Q GF+F + PK ++I NP ++ R +R +VE
Sbjct: 97 ATVLSGVLQVGFLFALEAIKPKAEKI--NPV-------QNAKRIFSLRSVVE 139
>gnl|CDD|144740 pfam01257, Complex1_24kDa, Respiratory-chain NADH dehydrogenase
24 Kd subunit.
Length = 145
Score = 28.2 bits (64), Expect = 1.7
Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 10/55 (18%)
Query: 20 MQEAQSSESHDPHAVVLATADRMGFPNARVVLIKHFDQEGFV-FYTN-SQSPKGK 72
+ AQ + P + A+ +G P ARV FY+ + P GK
Sbjct: 19 LHLAQEQYGYLPDEAIEYIAELLGIPPARV--------YEVATFYSMFNLKPVGK 65
>gnl|CDD|144818 pfam01366, PRTP, Herpesvirus processing and transport protein. The
members of this family are associate with capsid
intermediates during packaging of the virus.
Length = 635
Score = 28.0 bits (63), Expect = 1.7
Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 11/82 (13%)
Query: 82 LCFHWKSLARQLRVRGLVEKYCD-LASDHYYASRPRESKIGAWASKQSQKMPSLDDLQKS 140
+C H + +Q+ VRGL E L D ++ R S + A + QS+ S ++
Sbjct: 213 ICDH---VTKQVPVRGLFENELRHLPHDLGLSAERRPSALAALKAIQSRTAESDSGYREE 269
Query: 141 ----VQRYSSFYQEKEIPRPVW 158
+ ++ F EIP ++
Sbjct: 270 AEAALDAHNVF---SEIPPRIY 288
>gnl|CDD|36177 KOG0959, KOG0959, KOG0959, N-arginine dibasic convertase NRD1 and
related Zn2+-dependent endopeptidases, insulinase
superfamily [Posttranslational modification, protein
turnover, chaperones].
Length = 974
Score = 27.7 bits (61), Expect = 2.0
Identities = 20/117 (17%), Positives = 33/117 (28%), Gaps = 33/117 (28%)
Query: 87 KSLARQLRVRGLVEKYCDLASDHYYASRPRESKIGAWASKQSQKMPSLDDLQKSVQRYSS 146
K+L R L ++ + Y ++ +G SLD L+ V R
Sbjct: 188 KTLLEGPREIDLRDELLKFYKNWYSSNIMTLVIVGKE---------SLDVLESLVTRLFD 238
Query: 147 FYQEKEIPRPVW--------WHGFRI----------------CPLSIEFWSERPYRL 179
K+ PRPV+ + P + +P R
Sbjct: 239 EISNKKKPRPVFPEPPFLPEELKKLVRVVPIKDGRSLMISWPVPPLNHHYKSKPLRY 295
>gnl|CDD|58536 cd04367, IlGF_insulin_like, IlGF_like family, insulin_like
subgroup, specific to vertebrates. Members include a
number of peptides including insulin and insulin-like
growth factors I and II, which play a variety of roles
in controlling processes such as metabolism, growth and
differentiation, and reproduction. On a cellular level
they affect cell cycle, apoptosis, cell migration, and
differentiation. With the exception of the insulin-like
growth factors, the active forms of these peptide
hormones are composed of two chains (A and B) linked by
two disulfide bonds; the arrangement of four cysteines
is conserved in the "A" chain: Cys1 is linked by a
disulfide bond to Cys3, Cys2 and Cys4 are linked by
interchain disulfide bonds to cysteines in the "B"
chain. This alignment contains both chains, plus the
intervening linker region, arranged as found in the
propeptide form. Propeptides are cleaved to yield two
separate chains linked covalently by the two disulfide
bonds..
Length = 79
Score = 26.5 bits (58), Expect = 5.2
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 59 GFVFYTNSQSPKGKEILENPKASLCFHWKSLARQLRVRGLVEKYC 103
GF FYT + ++ L + + ++ R RG+VE+ C
Sbjct: 22 GF-FYTPKRRRDVEDPLVPQEQAAGLQPQAQEEIKRKRGIVEQCC 65
>gnl|CDD|33544 COG3749, COG3749, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 167
Score = 26.0 bits (57), Expect = 6.2
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 132 PSLDDLQKSVQRYSSFYQEKEIPRPVWW 159
+++ L + + S +YQ PRP W
Sbjct: 135 VAIERLLEGLGGISVYYQPAADPRPKSW 162
>gnl|CDD|29748 cd01145, TroA_c, Periplasmic binding protein TroA_c. These
proteins are predicted to function as initial receptors
in the ABC metal ion uptake in eubacteria and archaea.
They belong to the TroA superfamily of helical backbone
metal receptor proteins that share a distinct fold and
ligand binding mechanism. A typical TroA protein is
comprised of two globular subdomains connected by a
single helix and can bind their ligands in the cleft
between these domains..
Length = 203
Score = 26.2 bits (57), Expect = 7.2
Identities = 12/45 (26%), Positives = 16/45 (35%)
Query: 30 DPHAVVLATADRMGFPNARVVLIKHFDQEGFVFYTNSQSPKGKEI 74
DPH L +D A +V+ + EGF S K
Sbjct: 35 DPHQYQLKPSDIAKMRKADLVVTSGHELEGFEPKLAELSSNSKVQ 79
>gnl|CDD|144473 pfam00888, Cullin, Cullin family.
Length = 605
Score = 25.7 bits (56), Expect = 9.1
Identities = 10/42 (23%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 121 GAWASKQSQK--MPSLDDLQKSVQRYSSFYQEKEIPRPVWWH 160
G W + ++ +P ++L+K+++++ FY +K R + W
Sbjct: 475 GFWPTLPTEPFSLP--EELEKALEKFEEFYSKKHSGRKLTWL 514
>gnl|CDD|38506 KOG3296, KOG3296, KOG3296, Translocase of outer mitochondrial
membrane complex, subunit TOM40 [Intracellular
trafficking, secretion, and vesicular transport].
Length = 308
Score = 25.6 bits (56), Expect = 9.4
Identities = 11/69 (15%), Positives = 19/69 (27%), Gaps = 7/69 (10%)
Query: 32 HAVVLATADRMGFPNARVVLIKHFDQEGFVFYTNSQSPKGKEILENPKASLCFHWKSLAR 91
+ T + G Q G F TN++ + + +
Sbjct: 206 NWDATVTLGQQGLTGTYYQRAVEKLQMGVEFETNTRLQS-------TDVTAAYGYDLPTA 258
Query: 92 QLRVRGLVE 100
Q RG V+
Sbjct: 259 QSVFRGSVD 267
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
0.321 0.134 0.428
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,555,999
Number of extensions: 124316
Number of successful extensions: 295
Number of sequences better than 10.0: 1
Number of HSP's gapped: 291
Number of HSP's successfully gapped: 21
Length of query: 201
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 112
Effective length of database: 4,340,536
Effective search space: 486140032
Effective search space used: 486140032
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 (21.9 bits)
S2: 55 (25.0 bits)