RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781033|ref|YP_003065446.1| HemY domain-containing protein
[Candidatus Liberibacter asiaticus str. psy62]
(492 letters)
>gnl|CDD|148680 pfam07219, HemY_N, HemY protein N-terminus. This family represents
the N-terminus (approximately 150 residues) of bacterial
HemY porphyrin biosynthesis proteins. This is a membrane
protein involved in a late step of protoheme IX
synthesis.
Length = 134
Score = 68.1 bits (167), Expect = 5e-12
Identities = 33/134 (24%), Positives = 59/134 (44%), Gaps = 3/134 (2%)
Query: 1 MLRLIRYFFVISLV-ICSFIIVSHYPEDVSITWGNRLYRTSPFVILSILYFFLFAWILLF 59
MLR++ + F++ L+ + ++ P V I++G TS +L L LL
Sbjct: 1 MLRVLLFLFLVLLLGLFGGAWLAGQPGYVVISYGGYRIETSLTFAAILLLAVLAVLFLLE 60
Query: 60 AVSRFFLSCPAMLFHMLHKRNYDKGYKALYTGLMSIAAHNIPLARKMHSYVSQQHTFHNE 119
+ R + P + +R +G KAL GL+++A + LA ++ ++
Sbjct: 61 WLLRLIIRLPRRVRRYFRRRKRRRGRKALSEGLLALAEGDWALAERLARKAAELE--DQP 118
Query: 120 YLVYLLEVQIALAE 133
L LL + A AE
Sbjct: 119 PLALLLAARAAQAE 132
>gnl|CDD|163072 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 42.8 bits (101), Expect = 2e-04
Identities = 39/197 (19%), Positives = 83/197 (42%), Gaps = 12/197 (6%)
Query: 168 GDLNSAQRYATKALDISPDAPWVTEAVVQQYVLAKEWSRAITFLNQKKKNAKEWNRNRAI 227
GD +A++ KAL + V + + Y+L ++ + + L K E A
Sbjct: 70 GDYAAAEKELRKALSLGYPKNQVLPLLARAYLLQGKFQQVLDELPGKTLLDDE---GAAE 126
Query: 228 LLIARSLENADKGDMIASYHDAIESLKLCDNSIMASICAAKSLISQNKKRKAEVILEKIW 287
LL R L G + + ++L + S+ A + A+ +++N+ +A +++++
Sbjct: 127 LLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEVL 186
Query: 288 KVNPHPEIA-NIYTHLL-----SENTVGKLKRALRLEEINKESVESLVIVSKIALEMGSI 341
+P A + LL E + ++A+ + + L+ ++ I +E G
Sbjct: 187 TADPGNVDALLLKGDLLLSLGNIELALAAYRKAI---ALRPNNPAVLLALATILIEAGEF 243
Query: 342 DQAHAKAMLAMKIAPRK 358
++A A +K AP
Sbjct: 244 EEAEKHADALLKKAPNS 260
Score = 32.4 bits (74), Expect = 0.30
Identities = 42/217 (19%), Positives = 87/217 (40%), Gaps = 12/217 (5%)
Query: 166 RIGDLNSAQRYATKALDISPDAPWVTEAVVQQYVLAKEWSRAITFLNQKKKNAKEWNRNR 225
R+G ++ A + AL + PD P + + Y+ ++ +A +L + + E R
Sbjct: 341 RLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAAR 400
Query: 226 AILLIARSLENADKGDMIASYHDAIESLKLCDNSIMASICAAKSLISQNKKRKAEVILEK 285
L I++ + D + IA A +L A + S + + KA +K
Sbjct: 401 TQLGISKLSQG-DPSEAIADLETAA---QLDPELGRADLLLILSYLRSGQFDKALAAAKK 456
Query: 286 IWKVNPHPEIANIYTHL----LSENTVGKLKRALRLE-EINKESVESLVIVSKIALEMGS 340
+ K P+ A+++ L L + + K + A I + + +++I ++ G+
Sbjct: 457 LEK--KQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGN 514
Query: 341 IDQAHAKAMLAMKIAPR-KEIFLLLAQIEQANSHNTD 376
D A + + I P+ L LA + + +
Sbjct: 515 PDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEE 551
>gnl|CDD|162819 TIGR02354, thiF_fam2, thiamine biosynthesis protein ThiF, family 2.
Members of the HesA/MoeB/ThiF family of proteins
(pfam00899) include a number of members encoded in the
midst of thiamine biosynthetic operons. This mix of
known and putative ThiF proteins shows a deep split in
phylogenetic trees, with one the E. coli ThiF and the E.
coli MoeB proteins seemingly more closely related than
E. coli ThiF and Campylobacter (for example) ThiF. This
model represents the divergent clade of putative ThiF
proteins such found in Campylobacter.
Length = 200
Score = 35.2 bits (81), Expect = 0.042
Identities = 32/113 (28%), Positives = 48/113 (42%), Gaps = 25/113 (22%)
Query: 271 ISQNKKRKAEVILEKIWKVNPHPEIANIYTHLLSENTVGKLKRALRLEEINKESVESLVI 330
SQ + K E + E I ++NP+ EI Y E+I +E+++
Sbjct: 68 ASQVGEPKTEALKENISEINPYTEI-EAYD-----------------EKITEENIDKFFK 109
Query: 331 VSKIALEMGSIDQAHAKAMLA---MKIAPRKEIFLL--LAQIEQANSHNTDKI 378
+ I E + D A AKAML ++ K + LA + ANS T KI
Sbjct: 110 DADIVCE--AFDNAEAKAMLVNAVLEKYKDKYLIAASGLAGYDDANSIKTRKI 160
>gnl|CDD|168663 PRK06756, PRK06756, flavodoxin; Provisional.
Length = 148
Score = 31.0 bits (70), Expect = 0.73
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 11/88 (12%)
Query: 217 NAKEWNRNRAILLIARSLENADKGDMIASYHDAIESLKL----------CDNSIMASICA 266
A + I+L A + + D D ++DA++S+ L CD++ A
Sbjct: 43 EASILEQYDGIILGAYTWGDGDLPDDFLDFYDAMDSIDLTGKKAAVFGSCDSAYPKYGVA 102
Query: 267 AKSLISQNKKRKAEVILEKIWKVNPHPE 294
LI + ++R A V+LE + KV PE
Sbjct: 103 VDILIEKLQERGAAVVLEGL-KVELTPE 129
>gnl|CDD|182101 PRK09835, PRK09835, sensor kinase CusS; Provisional.
Length = 482
Score = 29.7 bits (67), Expect = 1.5
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 38 RTSPFVILS-ILYFFLFAWILLFAVSRFF 65
R + F+ L+ I FF F WI++ +V F
Sbjct: 15 RLTFFISLATIAAFFAFTWIMIHSVKVHF 43
>gnl|CDD|184064 PRK13461, PRK13461, F0F1 ATP synthase subunit B; Provisional.
Length = 159
Score = 29.6 bits (67), Expect = 2.1
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 271 ISQNKKRKAEVILEKIWKVNPHPEIANIYTHLLSENTVGKLKRALRLEEINKESVESLVI 330
I + K KAE + E+I K H E I + + ++ EI ++V+ V+
Sbjct: 76 IVEEYKSKAENVYEEIVK-EAHEEADLI---IERAKLEAQREKEKAEYEIKNQAVDLAVL 131
Query: 331 VSKIALEMGSIDQA 344
+S ALE SID++
Sbjct: 132 LSSKALE-ESIDES 144
>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
PilW. Members of this family are designated PilF in ref
(PubMed:8973346) and PilW in ref (PubMed:15612916). This
outer membrane protein is required both for pilus
stability and for pilus function such as adherence to
human cells. Members of this family contain copies of
the TPR (tetratricopeptide repeat) domain.
Length = 234
Score = 28.8 bits (65), Expect = 3.1
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 10/100 (10%)
Query: 117 HNEYLVYLLEV-QIALAERQYNIAHEKLEMML--QIPATREFAVYSLYFESCRIGDLNSA 173
N Y +L + + A +Q+ A +E L Q + E A + GD + A
Sbjct: 102 LNNYGTFLCQQGKYEQAMQQFEQA---IEDPLYPQPARSLENAGLCAL----KAGDFDKA 154
Query: 174 QRYATKALDISPDAPWVTEAVVQQYVLAKEWSRAITFLNQ 213
++Y T+AL I P P + + Y L ++ A +L +
Sbjct: 155 EKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLER 194
Score = 28.8 bits (65), Expect = 3.2
Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 26/122 (21%)
Query: 127 VQIALA--ER-QYNIAHEKLEMMLQIPATREFA--VYSLYFESCRIGDLNSAQRYATKAL 181
VQ+AL E+ +A E L+ L+ A +LY++ ++G+L A+ +AL
Sbjct: 35 VQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQ--QLGELEKAEDSFRRAL 92
Query: 182 DISPDAPWVTEAVVQQYVLAKEWSRAITFLNQKKKNAKEWNR-NRAILL-----IARSLE 235
++P+ V+ Y TFL Q+ K + + +AI ARSLE
Sbjct: 93 TLNPNNG----DVLNNYG---------TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLE 139
Query: 236 NA 237
NA
Sbjct: 140 NA 141
>gnl|CDD|163109 TIGR03023, WcaJ_sugtrans, Undecaprenyl-phosphate glucose
phosphotransferase. Colanic acid biosynthesis utilizes
a glucose-undecaprenyl carrier, knockout of EpsB
abolishes incorporation of UDP-glucose into the lipid
phase and the C-terminal portion of GumD has been shown
to be responsible for the glucosyl-1-transferase
activity.
Length = 451
Score = 28.3 bits (64), Expect = 5.1
Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 18/83 (21%)
Query: 1 MLRLIRYFFVISLVICSFIIVSHYPEDVSITWGNRLYRTSPFVILSILYFFLFAWILLFA 60
+LR++ + + L++ + + S W +L +FL A LL
Sbjct: 64 LLRILLAWTLTFLILALLAFLLKTGGEFSRLW--------------LLLWFLLALALL-L 108
Query: 61 VSRFFLSCPAMLFHMLHKRNYDK 83
+ R L +L L ++ ++
Sbjct: 109 LGRLIL---RLLLRRLRRKGFNL 128
>gnl|CDD|148994 pfam07695, 7TMR-DISM_7TM, 7TM diverse intracellular signalling.
This entry represents the transmembrane region of the
7TM-DISM (7TM Receptors with Diverse Intracellular
Signalling Modules).
Length = 207
Score = 28.0 bits (63), Expect = 6.5
Identities = 15/67 (22%), Positives = 29/67 (43%), Gaps = 7/67 (10%)
Query: 1 MLRLIRYFFVISLVICSFIIVSHYPEDVSITWGNRLYR-TSPFVILSILYFFLFAWILLF 59
+ RL+ ++ L++ + Y T RL + + IL +L + AW +
Sbjct: 98 LDRLLLGLALLLLLLLLLAPLFPY------TLSLRLAQLLALLFILFLLVLGIIAWRKGY 151
Query: 60 AVSRFFL 66
+R+FL
Sbjct: 152 KPARYFL 158
>gnl|CDD|150096 pfam09317, DUF1974, Domain of unknown function (DUF1974). Members
of this family of functionally uncharacterized domains
are predominantly found in various prokaryotic
acyl-coenzyme a dehydrogenases.
Length = 284
Score = 27.8 bits (63), Expect = 7.0
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 310 KLKRALRLEEINKESVESLVIVSKIALEMGSIDQAHAKAMLAMKIAPRKEI 360
KLK+AL+ ++ K +E L+ + ALE G I + A+ + + A I
Sbjct: 232 KLKKALKKGKLPKLRLEELL---EAALEAGVITEEEAELLREAEAARLDAI 279
>gnl|CDD|150299 pfam09586, YfhO, Bacterial membrane protein YfhO. This protein is
a conserved membrane protein. The yfhO gene is
transcribed in Difco sporulation medium and the
transcription is affected by the YvrGHb two-component
system. Some members of this family have been annotated
as glycosyl transferases of the PMT family.
Length = 835
Score = 27.6 bits (62), Expect = 7.7
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 10/52 (19%)
Query: 36 LYRTSPFVILSILYFF----------LFAWILLFAVSRFFLSCPAMLFHMLH 77
+Y ++L ILYFF LFA +LLF + F+L +++H
Sbjct: 281 IYVGLLPLLLLILYFFNKLIKLKEKLLFALLLLFLILSFYLPPLDLVWHGFQ 332
>gnl|CDD|181866 PRK09450, cyaA, adenylate cyclase; Provisional.
Length = 830
Score = 27.6 bits (62), Expect = 8.4
Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 13/61 (21%)
Query: 66 LSCPAMLFHMLH-KRNYDKGYKALYTGLMSIAAHNIPLARKMHSYVSQQHTFHNEYLVYL 124
LS P + F + R G+ LY S + Q +N YL L
Sbjct: 445 LSEPDLTFIEVPPGRANRSGW-YLYNQAPD-----------PDSIIGHQPLEYNRYLNKL 492
Query: 125 L 125
+
Sbjct: 493 V 493
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 0.134 0.400
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 8,031,257
Number of extensions: 513145
Number of successful extensions: 1106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1099
Number of HSP's successfully gapped: 47
Length of query: 492
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 395
Effective length of database: 3,898,497
Effective search space: 1539906315
Effective search space used: 1539906315
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: 59 (26.5 bits)