RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780426|ref|YP_003064839.1| hemolysin protein [Candidatus
Liberibacter asiaticus str. psy62]
(320 letters)
>gnl|CDD|132559 TIGR03520, GldE, gliding motility-associated protein GldE. Members
of this protein family are exclusive to the
Bacteroidetes phylum (previously
Cytophaga-Flavobacteria-Bacteroides). GldC is a protein
linked to a type of rapid surface gliding motility found
in certain Bacteroidetes, such as Flavobacterium
johnsoniae and Cytophaga hutchinsonii. GldE was
discovered because of its adjacency to GldD in F.
johnsonii. Overexpression of GldE partially supresses
the effects of a GldB point mutant suggesting that GldB
and GldE interact. Gliding motility appears closely
linked to chitin utilization in the model species
Flavobacterium johnsoniae. Not all Bacteroidetes with
members of this protein family appear to have all of the
genes associated with gliding motility and in fact some
do not appear to express the gliding phenotype.
Length = 408
Score = 119 bits (301), Expect = 8e-28
Identities = 67/246 (27%), Positives = 133/246 (54%), Gaps = 17/246 (6%)
Query: 71 SETEKEIFNNILRFRKIRIDDIMISRVSINAVEDKATVYEAMLMFEKYGRSWMPVYKNSL 130
++ E++I I+ F +M R+ I A++ + + E + + G S +PVYK ++
Sbjct: 175 TKEEQKILQGIVSFGNTDTKQVMRPRLDIFALDIETSFSEIIPKIIENGYSRIPVYKETI 234
Query: 131 DNPRGMVHMRDVISYISHMYAKTNNINLNIQLSESNLIKNILFVPSSMLVSDLLTNIQES 190
DN G+++++D++ ++ N N + Q +L++ FVP + + DLL + QE
Sbjct: 235 DNITGVLYIKDLLPHL-------NKKNFDWQ----SLLREPYFVPENKKLDDLLRDFQEK 283
Query: 191 RIRMALVIDEHGGTDGLVSYEDIVSVLMRDITSEHHSKKSMISAVSDNTFIVDARTDLEE 250
+ +A+V+DE+GGT GLV+ EDI+ ++ DI+ E + + S + DN ++ + +T L++
Sbjct: 284 KNHLAIVVDEYGGTSGLVTLEDIIEEIVGDISDEFDDEDLIYSKIDDNNYVFEGKTSLKD 343
Query: 251 LAKIIGTDCNCL---KGEQDVDSLGGLIFSVLDRIPARGEVVLEIPGFEIVILDADVRCV 307
KI+ + + KGE ++L G + + P +GE + FE I D + +
Sbjct: 344 FYKILKLEEDMFDEVKGEA--ETLAGFLLEISGGFPKKGEKIT-FENFEFTIEAMDKKRI 400
Query: 308 RRVRIR 313
++V++
Sbjct: 401 KQVKVT 406
>gnl|CDD|185050 PRK15094, PRK15094, magnesium/cobalt efflux protein CorC;
Provisional.
Length = 292
Score = 90.3 bits (224), Expect = 6e-19
Identities = 59/227 (25%), Positives = 119/227 (52%), Gaps = 15/227 (6%)
Query: 88 RIDDIMISRVSINAVEDKATVYEAMLMFEKYGRSWMPVYKNSLDNPRGMVHMRDVISYIS 147
R+ DIMI R + ++ T+ E + + + S PV D+ G++ +D++ ++
Sbjct: 68 RVRDIMIPRSQMITLKRNQTLDECLDVIIESAHSRFPVISEDKDHIEGILMAKDLLPFM- 126
Query: 148 HMYAKTNNINLNIQLSESNLIKNILFVPSSMLVSDLLTNIQESRIRMALVIDEHGGTDGL 207
+++ ++ +++ + VP S V +L + R MA+VIDE GG GL
Sbjct: 127 ----RSDAEAFSMD----KVLRQAVVVPESKRVDRMLKEFRSQRYHMAIVIDEFGGVSGL 178
Query: 208 VSYEDIVSVLMRDITSEHHSKKSM-ISAVSDNTFIVDARTDLEELAKIIGTDCNCLKGEQ 266
V+ EDI+ +++ +I E+ + + +S +T+ V A +E+ + GT + ++
Sbjct: 179 VTIEDILELIVGEIEDEYDEEDDIDFRQLSRHTWTVRALASIEDFNEAFGTHFS----DE 234
Query: 267 DVDSLGGLIFSVLDRIPARGEVVLEIPGFEIVILDADVRCVRRVRIR 313
+VD++GGL+ +PARGE + +I G++ + AD R + +V ++
Sbjct: 235 EVDTIGGLVMQAFGHLPARGETI-DIDGYQFKVAMADSRRIIQVHVK 280
>gnl|CDD|183209 PRK11573, PRK11573, hypothetical protein; Provisional.
Length = 413
Score = 77.5 bits (191), Expect = 5e-15
Identities = 65/241 (26%), Positives = 121/241 (50%), Gaps = 27/241 (11%)
Query: 81 ILRFRKIRIDDIMISR---VSINAVED-KATVYEAMLMFEKYGRSWMPVYKNSLDNPRGM 136
+L K+ +DDIM+ R V I+ +D K+ + + L +GR + +Y++SLD+ M
Sbjct: 181 VLDLEKVTVDDIMVPRNEIVGIDINDDWKSILRQ--LTHSPHGR--IVLYRDSLDDAISM 236
Query: 137 VHMRDVISYISHMYAKTNNINLNIQLSESNLIK---NILFVPSSMLVSDLLTNIQESRIR 193
+ +R+ +Y K + ++ N+++ I FVP +S L Q ++ +
Sbjct: 237 LRVRE--AYRLMTEKK--------EFTKENMLRAADEIYFVPEGTPLSTQLVKFQRNKKK 286
Query: 194 MALVIDEHGGTDGLVSYEDIVSVLMRDI-TSEHHSKKSMISAVSDNTFIVDARTDLEELA 252
+ LV+DE+G GLV+ EDI+ ++ D TS + ++ +D + I+D ++ E+
Sbjct: 287 VGLVVDEYGDIQGLVTVEDILEEIVGDFTTSMSPTLAEEVTPQNDGSVIIDGTANVREIN 346
Query: 253 KIIGTDCNCLKGEQDVDSLGGLIFSVLDRIPARGEVVLEIPGFEIVILDADVRCVRRVRI 312
K N E D ++ G+I L+ IP G V I ++I ILD +++V++
Sbjct: 347 KAF----NWHLPEDDARTVNGVILEALEEIPVAGTRV-RIGEYDIDILDVQDNMIKQVKV 401
Query: 313 R 313
Sbjct: 402 T 402
>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 = 34.6 bits (80), Expect = 0.037
Identities = 26/113 (23%), Positives = 53/113 (46%), Gaps = 12/113 (10%)
Query: 106 ATVYEAMLMFEKYGRSWMPVYKNSLDNPR--GMVHMRDVISYISHMYAKTNNINLNIQLS 163
TV + + + E+ G S +PV ++ + G++ RD+ + K ++ ++
Sbjct: 97 TTVADVLELMERKGISGIPVVEDGDMTGKLVGIITKRDI------RFVKDKGKPVSEVMT 150
Query: 164 ESNLIKNILFVPSSMLVSDLLTNIQESRIRMALVIDEHGGTDGLVSYEDIVSV 216
+I VP + + + L + E RI V+D++G GL++ +DIV
Sbjct: 151 REEVIT----VPEGIDLEEALKVLHEHRIEKLPVVDKNGELVGLITMKDIVKR 199
>gnl|CDD|180460 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 28.9 bits (65), Expect = 1.6
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 6/34 (17%)
Query: 282 IPARG-----EVVLEIPGFEIVILD-ADVRCVRR 309
+PAR E + I G E+V+LD AD+ VR
Sbjct: 55 VPARRPDVAREALAGIDGVEVVMLDLADLESVRA 88
>gnl|CDD|161821 TIGR00331, hrcA, heat shock gene repressor HrcA. In Bacillus
subtilis, hrcA is the first gene of the dnaK operon and
so is itself a heat shock gene.
Length = 337
Score = 28.8 bits (65), Expect = 2.0
Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 10/106 (9%)
Query: 152 KTNNINLNIQLSESNL--IKNILFVPSSMLVSDLLTNIQESRIRMALVIDEHGGTDGLVS 209
K I L +S+ +L NIL +D L S IR ++ +
Sbjct: 157 KNKVIELPANISQEDLERAVNIL--------NDRLRGRTLSEIREQIIELLSQLKIEIEE 208
Query: 210 YEDIVSVLMRDITSEHHSKKSMISAVSDNTFIVDARTDLEELAKII 255
+ED + L+ I SE + ++ + S+ + +E + +++
Sbjct: 209 FEDELVDLIISIFSEFNEEELYVDGKSNLLEQPEFFDPIERIRELL 254
>gnl|CDD|128426 smart00116, CBS, Domain in cystathionine beta-synthase and other
proteins. Domain present in all 3 forms of cellular
life. Present in two copies in inosine monophosphate
dehydrogenase, of which one is disordered in the crystal
structure [3]. A number of disease states are associated
with CBS-containing proteins including homocystinuria,
Becker's and Thomsen disease.
Length = 49
Score = 28.6 bits (65), Expect = 2.5
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 174 VPSSMLVSDLLTNIQESRIRMALVIDEHGGTDGLVSYEDIVSVL 217
V + + L ++E IR V+DE G G+V+ DI+ L
Sbjct: 5 VSPDTTLEEALELLREHGIRRLPVVDEEGRLVGIVTRRDIIKAL 48
>gnl|CDD|130585 TIGR01522, ATPase-IIA2_Ca, golgi membrane calcium-translocating
P-type ATPase. The calcium P-type ATPases have been
characterized as Type IIA based on a phylogenetic
analysis which distinguishes this group from the Type
IIB PMCA calcium pump modelled by TIGR01517. A separate
analysis divides Type IIA into sub-types, SERCA and PMR1
the former of which is modelled by TIGR01116.
Length = 884
Score = 28.3 bits (63), Expect = 3.0
Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 44/130 (33%)
Query: 165 SNLIKN--ILFVPSSMLVSDLLTNIQES-RIRMALVIDEHGGTDGLVSYEDIVSVLMRDI 221
S +KN IL + +S ++S + NI ++ I +A++I +V+V
Sbjct: 56 SQFVKNPLILLLIASAVISVFMGNIDDAVSITLAILI--------------VVTV---GF 98
Query: 222 TSEHHSKKSMISAVSDNTFIVDARTDLEELAKIIGTDCNCLKGEQDVDSLGG-------L 274
E+ S+KS LE L K++ +C+ ++ + L +
Sbjct: 99 VQEYRSEKS-----------------LEALNKLVPPECHLIREGKLEHVLASTLVPGDLV 141
Query: 275 IFSVLDRIPA 284
SV DR+PA
Sbjct: 142 CLSVGDRVPA 151
>gnl|CDD|184871 PRK14869, PRK14869, putative manganese-dependent inorganic
pyrophosphatase; Provisional.
Length = 546
Score = 28.3 bits (64), Expect = 3.2
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 4/93 (4%)
Query: 167 LIKNILFVPSSMLVSDLLTNIQESRIRMALVIDEHGGTDGLVSYEDIVSVLMR----DIT 222
I + V + + + E+ ++ V+DE G GLVS D+ M +I
Sbjct: 74 EIDKPVTVSPDTSLKEAWNLMDENNVKTLPVVDEEGKLLGLVSLSDLARAYMDILDPEIL 133
Query: 223 SEHHSKKSMISAVSDNTFIVDARTDLEELAKII 255
S+ + I D +V A D E K++
Sbjct: 134 SKSPTSLENIIRTLDGEVLVGAEEDKVEEGKVV 166
>gnl|CDD|177609 PHA03372, PHA03372, DNA packaging terminase subunit 1; Provisional.
Length = 668
Score = 27.8 bits (62), Expect = 3.5
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 10/72 (13%)
Query: 79 NNILRFRKIRIDDIMISRVSINAVEDKATVYEAMLMFEKYGRSW--MPVYKNSLDNPRGM 136
N +L + D +S S+N + KATV+ L+ ++G++W +P+ L N G+
Sbjct: 177 NRVLEYLLHVFDIEFLSESSLNIFKQKATVF---LVPRRHGKTWFIIPIISFLLKNIIGI 233
Query: 137 VHMRDVISYISH 148
I Y++H
Sbjct: 234 -----SIGYVAH 240
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 27.6 bits (61), Expect = 4.6
Identities = 22/73 (30%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 64 ASLEGIFSETEKEIFNNILRFRKIRIDDIMIS----RVSINAVEDKATVYEAMLMFEKYG 119
A IF T IF IL+ R RI I I ++S N ++++ E F G
Sbjct: 311 ADATDIFENTRYGIFKQILQ-RGGRIKGINIKGQSEKLSKNVLQNE-YAKEIAPSFGAKG 368
Query: 120 RSWMPVYKNSLDN 132
+WM LD+
Sbjct: 369 MTWMRAEAGGLDS 381
>gnl|CDD|162590 TIGR01899, cas_TM1807_csm5, CRISPR-associated RAMP protein, Csm5
family. CRISPR is a term for Clustered Regularly
Interspaced Short Palidromic Repeats. A number of
protein families appear only in association with these
repeats and are designated Cas (CRISPR associated)
proteins. Members of this cas gene family are found in
the mtube subtype of CRISPR/cas locus and designated
Csm5, for CRISPR/cas Subtype Mtube, protein 5.
Length = 365
Score = 26.7 bits (59), Expect = 7.7
Identities = 19/113 (16%), Positives = 31/113 (27%), Gaps = 10/113 (8%)
Query: 56 GIRLPRIDASLEGIFSETEKEIFNNILRFRKIRIDDIMISRVSINAVEDKATVYEAMLMF 115
G R + GI + K+ N++ R +++ D R V Y
Sbjct: 152 GRAFERKELKKNGISNTIPKDPVNDVFRA--LKVSDSRPLRTDRLIVHRIKLNY------ 203
Query: 116 EKYGRSWMPVYKNSLDNPRGMVHMRDVISYISHMYAKTNNINLNIQLSESNLI 168
GR +P+Y LD + E+ L
Sbjct: 204 --NGRPGIPLYAECLDPGTTFSFNVKIDREELKRGLDRKKQFYAPSEGENKLE 254
>gnl|CDD|114953 pfam06261, LktC, Actinobacillus actinomycetemcomitans leukotoxin
activator LktC. This family consists of several
Actinobacillus actinomycetemcomitans leukotoxin
activator (LktC) proteins. Actinobacillus
actinomycetemcomitans is a Gram-negative bacterium that
has been implicated in the etiology of several forms of
periodontitis, especially localized juvenile
periodontitis. LktC along with LktB and LktD are
thought to be required for activation and localisation
of the leukotoxin.
Length = 150
Score = 26.6 bits (58), Expect = 8.4
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 26 ISKTSVPAFWTRTIR------ALCKTWKLMKLSHHKGIRLPRIDASLEGIFSE 72
+S T F+ R I+ LC+ WKL++ K ++ I A + GIF E
Sbjct: 1 MSGTEYAPFYLRFIQFPNNEVLLCEYWKLVQNFVKKIRKITVIFAQIIGIFGE 53
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 0.136 0.389
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,172,867
Number of extensions: 330879
Number of successful extensions: 647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 637
Number of HSP's successfully gapped: 24
Length of query: 320
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 227
Effective length of database: 3,984,929
Effective search space: 904578883
Effective search space used: 904578883
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: 57 (25.8 bits)