RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780308|ref|YP_003064721.1| putative membrane-bound lytic
murein transglycosylase signal peptide protein [Candidatus
Liberibacter asiaticus str. psy62]
(288 letters)
>gnl|CDD|162796 TIGR02283, MltB_2, lytic murein transglycosylase. Members of this
family are closely related to the MltB family lytic
murein transglycosylases described by TIGR02282 and are
likewise all proteobacterial, although that family and
this one form clearly distinct clades. Several species
have one member of each family. Many members of this
family (unlike the MltB family) contain an additional
C-terminal domain, a putative peptidoglycan binding
domain (pfam01471), not included in region described by
this model. Many sequences appear to contain N-terminal
lipoprotein attachment sites, as does E. coli MltB in
TIGR02282.
Length = 300
Score = 199 bits (507), Expect = 1e-51
Identities = 78/205 (38%), Positives = 117/205 (57%), Gaps = 9/205 (4%)
Query: 42 FGEWKSAARARAVREGMSPKTAKHLFADLEYLD-TTIARDRKMVTSPPV---SFKDYLDG 97
F W + RA A +G+S T FA ++ D + + DR + P +F DYL
Sbjct: 2 FDAWLAQLRAEAAAKGISAATFDRAFAGIKEPDQSVLNLDR----NQPEFTQTFWDYLSR 57
Query: 98 LSSSEIIAQGIALKKANSRLLINLKKEYGVPPGILMALWGLETHFGETMGKTPLLSTLAT 157
S IA G A+ + + LL ++K YGVP IL+A+WG+E+ FG GK ++ +LAT
Sbjct: 58 RVSPRRIAIGRAMLQRYAALLARIEKRYGVPAEILLAIWGMESDFGAYQGKFDVIRSLAT 117
Query: 158 LAYDCRRAKFFTEQFFYALDLVKKGVISSHAL-GATFGEIGQFQFLPVNVVKYAIDADED 216
LAYD RR +F + AL ++++G ++ A+ G+ G +GQ QFLP + + YA+D D D
Sbjct: 118 LAYDGRRKDYFRTELIAALKILQRGDLTRAAMKGSWAGAMGQTQFLPSSYLNYAVDFDGD 177
Query: 217 GKIDLVKSNIDAIASAAKFLAKLGW 241
G+ D+ S DA+AS A +L GW
Sbjct: 178 GRRDIWNSVPDALASTANYLVNGGW 202
Score = 39.3 bits (92), Expect = 0.001
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 252 KNFAILKHWNASLNYNKTIAYIAAHIDG 279
NF ++K WN S Y TI +A I G
Sbjct: 273 PNFRVIKEWNRSDYYALTIGLLADRIAG 300
>gnl|CDD|162795 TIGR02282, MltB, lytic murein transglycosylase B. This family
consists of lytic murein transglycosylases (murein
hydrolases) in the family of MltB, which is a
membrane-bound lipoprotein in Escherichia coli. The
N-terminal lipoprotein modification motif is conserved
in about half the members of this family. The term Slt35
describes a naturally occurring soluble fragment of
MltB. Members of this family never contain the putative
peptidoglycan binding domain described by Pfam model
pfam01471, which is associated with several classes of
bacterial cell wall lytic enzymes.
Length = 290
Score = 114 bits (288), Expect = 2e-26
Identities = 63/188 (33%), Positives = 95/188 (50%), Gaps = 19/188 (10%)
Query: 66 LFADLEYLDTTIARDRKMVTSPPVSFK---DYLDGLSSSEIIAQGIALKKANSRLLINLK 122
+ A +Y D I +++ +P S K +Y + + I G+ K + L +
Sbjct: 21 ILAQAKYNDEVI----RLIDNPAESAKPWLEYRGIFITPKRIQDGVEFWKQHEDALNRAE 76
Query: 123 KEYGVPPGILMALWGLETHFGETMGKTPLLSTLATLAYDC-RRAKFFTEQFFYALDLVK- 180
+ YGVPP I++A+ G+ET++G MGK +L L TLA+D RRA FF + L L +
Sbjct: 77 QRYGVPPEIIVAIIGVETNYGRNMGKYRVLDALTTLAFDYPRRATFFRGELGQFLLLARE 136
Query: 181 -----KGVISSHALGATFGEIGQFQFLPVNVVKYAIDADEDGKIDLVKSNIDAIASAAKF 235
+ S+A G +G QF+P + +YA+D D DG IDL S DAI S A +
Sbjct: 137 EQLDPLTLKGSYA-----GAMGYPQFMPSSYRQYAVDFDGDGHIDLWNSPDDAIGSVANY 191
Query: 236 LAKLGWTK 243
GW +
Sbjct: 192 FHAHGWVR 199
>gnl|CDD|182706 PRK10760, PRK10760, murein hydrolase B; Provisional.
Length = 359
Score = 93.3 bits (232), Expect = 6e-20
Identities = 46/123 (37%), Positives = 72/123 (58%), Gaps = 3/123 (2%)
Query: 123 KEYGVPPGILMALWGLETHFGETMGKTPLLSTLATLAYDC-RRAKFFTEQFFYALDLVKK 181
+ YGVPP I++ + G+ET +G MGKT +L LATL+++ RRA++F+ + L + +
Sbjct: 144 QVYGVPPEIIVGIIGVETRWGRVMGKTRILDALATLSFNYPRRAEYFSGELETFLLMARD 203
Query: 182 GVISSHALGATF-GEIGQFQFLPVNVVKYAIDADEDGKIDLVKSNIDAIASAAKFLAKLG 240
L +F G +G QF+P + +YA+D + DG I+L +DAI S A + G
Sbjct: 204 EGDDPLNLRGSFAGAMGYGQFMPSSFKQYAVDFNGDGHINLWDP-VDAIGSVANYFKAHG 262
Query: 241 WTK 243
W K
Sbjct: 263 WVK 265
>gnl|CDD|182561 PRK10575, PRK10575, iron-hydroxamate transporter ATP-binding
subunit; Provisional.
Length = 265
Score = 32.1 bits (73), Expect = 0.18
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 93 DYLDGLSSSEIIAQGIALKKANSRLLINLKKEYGVPPGIL 132
DYL L E+IAQG + L + YG+P GIL
Sbjct: 216 DYLVALRGGEMIAQGTPAELMRGETLEQI---YGIPMGIL 252
>gnl|CDD|182660 PRK10701, PRK10701, DNA-binding transcriptional regulator RstA;
Provisional.
Length = 240
Score = 31.1 bits (71), Expect = 0.29
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 135 LWGLETHFGETMGKTPLLSTLATLAYD 161
LW L TH G+ M + LL L ++YD
Sbjct: 170 LWELATHAGQIMDRDALLKNLRGVSYD 196
>gnl|CDD|162188 TIGR01070, mutS1, DNA mismatch repair protein MutS.
Length = 840
Score = 27.4 bits (61), Expect = 3.9
Identities = 16/70 (22%), Positives = 23/70 (32%), Gaps = 1/70 (1%)
Query: 90 SFKDYLDGLSSSEIIAQGIALKKANSRLLINLKKEYGVPPGILMALWGLE-THFGETMGK 148
+ L + E +A +AL A R L L+ P + L LE +
Sbjct: 322 GLRPLLKEVGDLERLAARVALGNARPRDLARLRTSLEQLPELRALLEELEGPTLQALAAQ 381
Query: 149 TPLLSTLATL 158
S L L
Sbjct: 382 IDDFSELLEL 391
>gnl|CDD|173066 PRK14602, ruvA, Holliday junction DNA helicase RuvA; Provisional.
Length = 203
Score = 27.4 bits (61), Expect = 4.8
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 57 GMSPKTAKHLFADLEYLDTTIARDRKMVTSPPVS-------FKDYLDGLSS 100
G+ KTA+H+F +L+Y + F+D L GL++
Sbjct: 116 GIGKKTAQHIFLELKY--KLKVEGLPAAAVLAGTGAVPGSVFRDALAGLAN 164
>gnl|CDD|163338 TIGR03588, PseC, UDP-4-keto-6-deoxy-N-acetylglucosamine
4-aminotransferase. This family of enzymes are
aminotransferases of the pfam01041 family involved in
the biosynthesis of pseudaminic acid. They convert
UDP-4-keto-6-deoxy-N-acetylglucosamine into
UDP-4-amino-4,6-dideoxy-N-acetylgalactose. Pseudaminic
acid has a role in surface polysaccharide in Pseudomonas
as well as in the modification of flagellin in
Campylobacter and Helicobacter species.
Length = 380
Score = 26.5 bits (59), Expect = 7.7
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 17/69 (24%)
Query: 185 SSHALGATFG----------EIGQFQFLPVNVVKYAIDADEDGKIDLVKSNIDAIASAAK 234
+SHALGA +G + F F PV ++ A E G V +N + +A +
Sbjct: 155 ASHALGAEYGGKPVGNCRYADATVFSFHPVKIITTA----EGG---AVTTNDEELAERMR 207
Query: 235 FLAKLGWTK 243
L G TK
Sbjct: 208 LLRSHGITK 216
>gnl|CDD|131352 TIGR02299, HpaE, 5-carboxymethyl-2-hydroxymuconate semialdehyde
dehydrogenase. This model represents the dehydrogenase
responsible for the conversion of
5-carboxymethyl-2-hydroxymuconate semialdehyde to
5-carboxymethyl-2-hydroxymuconate (a tricarboxylic
acid). This is the step in the degradation of
4-hydroxyphenylacetic acid via homoprotocatechuate
following the oxidative opening of the aromatic ring.
Length = 488
Score = 26.7 bits (59), Expect = 8.0
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 118 LINLKKEYGVPPGILMALWGLETHFGETMGKT 149
L + KE G+P G+ + G FGE GK
Sbjct: 181 LAEIAKEAGLPDGVFNLVHG----FGEEAGKA 208
>gnl|CDD|161755 TIGR00193, urease_gam, urease, gamma subunit. Nomenclature for the
various subunits of urease in Helicobacter differs from
nomenclature in most other species.
Length = 102
Score = 26.4 bits (58), Expect = 8.7
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 264 LNYNKTIAYIAAHI-DGVPIGKG 285
LNY + +AYI+AHI +G GK
Sbjct: 30 LNYPEAVAYISAHIMEGARDGKK 52
>gnl|CDD|149573 pfam08571, Yos1, Yos1-like. In yeast, Yos1 is a subunit of the
Yip1p-Yif1p complex and is required for transport
between the endoplasmic reticulum and the Golgi complex.
Yos1 appears to be conserved in eukaryotes.
Length = 77
Score = 26.4 bits (59), Expect = 9.2
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 228 AIASAAKFLAKLGWTKCAGYQPGEKN 253
AI S +FL+++GW+ A G +N
Sbjct: 16 AILSEDRFLSRIGWSSSAASGNGSEN 41
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 0.135 0.399
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,722,109
Number of extensions: 299154
Number of successful extensions: 637
Number of sequences better than 10.0: 1
Number of HSP's gapped: 632
Number of HSP's successfully gapped: 16
Length of query: 288
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 196
Effective length of database: 4,006,537
Effective search space: 785281252
Effective search space used: 785281252
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)