RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780378|ref|YP_003064791.1| flagellar basal body rod
protein FlgG [Candidatus Liberibacter asiaticus str. psy62]
(262 letters)
>gnl|CDD|34397 COG4786, FlgG, Flagellar basal body rod protein [Cell motility and
secretion].
Length = 265
Score = 268 bits (686), Expect = 1e-72
Identities = 122/266 (45%), Positives = 172/266 (64%), Gaps = 7/266 (2%)
Query: 1 MKAFMIAAAGMSAQQTNLEIIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADK 60
++ AA+GM AQQ L++I+NN+AN+NTTG+KR RAEF D LYQ AG+P+ ++
Sbjct: 2 LRGLYTAASGMMAQQRKLDVISNNLANVNTTGFKRDRAEFEDLLYQTINTAGAPNSNST- 60
Query: 61 AVVPEGISIGSGVQISSVRNVYTQGEVVHTGNNLDLALVGRGWFQVETPDKTVMYTRAGS 120
P G +G GV+++ V+TQG + T N LDLA+ G G+FQ++TPD T+ YTR GS
Sbjct: 61 -TSPSGGQVGLGVRVNETYTVFTQGSLQKTDNPLDLAITGDGFFQIQTPDGTIAYTRDGS 119
Query: 121 FNIDSKGQLVTADGNTLVP----GIVIPEETREIKVSRSGQILAVTGKNSDFQPVGQLLI 176
F +D +GQLVT++G ++ I IP I + + G + N+D VGQ+ +
Sbjct: 120 FTVDEEGQLVTSNGYPVLDSGGNPITIPNNAGSITIGKDGTVSVTIRGNTDPVQVGQIGL 179
Query: 177 ANFINEAGLRNIGDNLLARTSVSGDPIISNPDDIGFAHVKQGYLEASNVDAVKEISEMIS 236
NF N AGL+ IG+NL T+ SG PI+ P D GF ++QG+LEASNV+ V+E+++MI
Sbjct: 180 VNFDNPAGLKKIGNNLYQETAASG-PIVGVPGDNGFGAIRQGFLEASNVNVVEEMTDMIE 238
Query: 237 AQRAYEMNSKVIEAADEMSSLITKMR 262
AQRAYE NSKVI+ ADEM +
Sbjct: 239 AQRAYEANSKVIQTADEMLGKANNLL 264
>gnl|CDD|31935 COG1749, FlgE, Flagellar hook protein FlgE [Cell motility and
secretion].
Length = 423
Score = 115 bits (288), Expect = 2e-26
Identities = 69/210 (32%), Positives = 97/210 (46%), Gaps = 27/210 (12%)
Query: 1 MKAFMIAAAGMSAQQTNLEIIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADK 60
+++F +GM+A Q L++I+NNIAN NTTG+KR+RAEF+D Q+ A + +
Sbjct: 2 LRSFYNGVSGMNAHQFALDVISNNIANANTTGFKRSRAEFSDMFSQSLVGASTYTA---- 57
Query: 61 AVVPEGISIGSGVQISSVRNVYTQGEVVHTGNNLDLALVGRGWFQVETP-DKTVMYTRAG 119
GV +SS+ ++TQG TG+NLDLA+ G G+F V+ T YTRAG
Sbjct: 58 ----------LGVGVSSISQIFTQGSFQSTGSNLDLAISGNGFFIVQDDSGGTNFYTRAG 107
Query: 120 SFNIDSKGQLVTADGNTLVPGIVIPEETREIKVSRSGQILAVTGKNSDFQPVGQLLIANF 179
SF +D G LV G L G T I + + + P L A
Sbjct: 108 SFRLDKNGYLVNPAGLYLQ-GYPANGVTGGINGGTTLLNIQI--------PNNNGLPAKA 158
Query: 180 INEAGLRNIGDNLLARTSVSGDPIISNPDD 209
+ NL + V NP D
Sbjct: 159 TTNV---SFSANLNSGAIVPSITAPFNPTD 185
Score = 90.8 bits (225), Expect = 4e-19
Identities = 47/145 (32%), Positives = 72/145 (49%), Gaps = 3/145 (2%)
Query: 120 SFNIDSKGQLVTADGNTLVPGI--VIPEETREIKVSRSGQILAVTGKNSDFQPVGQLLIA 177
S ++ Q T T+ P ++ ++ G I+ V N QP+GQ+ +A
Sbjct: 279 SLDLTGSTQQSTGFSLTVASTQDGYAPGNLKDYRIDEDGVIVGVY-SNGVTQPLGQIALA 337
Query: 178 NFINEAGLRNIGDNLLARTSVSGDPIISNPDDIGFAHVKQGYLEASNVDAVKEISEMISA 237
NF N GL G N+ A T+ SG + GF + G LE SNVD KE++ +I A
Sbjct: 338 NFANPQGLVKEGGNVYAATNNSGAASLGAAGVGGFGKISSGALEMSNVDLAKELTNLIVA 397
Query: 238 QRAYEMNSKVIEAADEMSSLITKMR 262
QR Y+ N+KVI +D+M + ++
Sbjct: 398 QRGYQANAKVITTSDQMLQTLVNLK 422
>gnl|CDD|34398 COG4787, FlgF, Flagellar basal body rod protein [Cell motility and
secretion].
Length = 251
Score = 104 bits (261), Expect = 3e-23
Identities = 73/253 (28%), Positives = 115/253 (45%), Gaps = 28/253 (11%)
Query: 11 MSAQQTNLE---IIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADKAVVPEGI 67
M A LE + ANN+AN +TTG+ RA+ P+++ A P
Sbjct: 9 MGAASQLLEQQAVTANNLANASTTGF---RAQLNAARAVQVHGDSLPTRTFVMASTP--- 62
Query: 68 SIGSGVQISSVRNVYTQGEVVHTGNNLDLALVGRGWFQVETPDKTVMYTRAGSFNIDSKG 127
G +S G + +TG LD+A+ G GW V+ D + YTR G+ ID+ G
Sbjct: 63 ----GTDMS-------PGSLDYTGRPLDVAIQGDGWLAVQDADGSEAYTRNGNIQIDATG 111
Query: 128 QLVTADGNTLVPG---IVIPEETREIKVSRSGQILAVTGKNSD--FQPVGQLLIANFINE 182
QL T G+ ++ I +P ++ ++ G I A+ + VG+L +
Sbjct: 112 QL-TIQGHPVIGEGGPITVPPGA-KVTIAADGTISALNPGDPANTVAVVGRLKLVQ-ATG 168
Query: 183 AGLRNIGDNLLARTSVSGDPIISNPDDIGFAHVKQGYLEASNVDAVKEISEMISAQRAYE 242
++ D L T+ + P V G LE SNV+AV+E+++MIS R +E
Sbjct: 169 QEVQRGDDGLFRLTAETQQPRGQVLKADPSVRVMSGALEGSNVNAVEEMTDMISLARQFE 228
Query: 243 MNSKVIEAADEMS 255
M K+I AD+ +
Sbjct: 229 MQMKMISTADDNA 241
>gnl|CDD|32000 COG1815, FlgB, Flagellar basal body protein [Cell motility and
secretion].
Length = 133
Score = 47.6 bits (113), Expect = 3e-06
Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 2/95 (2%)
Query: 2 KAFMIAAAGMSAQQTNLEIIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADKA 61
+AF + + + E+IANNIAN +T GYK +F L +A AG+ + A
Sbjct: 6 RAFGLLQKALDVRSLRQEVIANNIANADTPGYKAKDVDFESVLKKAL--AGNNTTLALAK 63
Query: 62 VVPEGISIGSGVQISSVRNVYTQGEVVHTGNNLDL 96
+ + + + G+ + GN +DL
Sbjct: 64 TSTRHLGPAENIDPTDASLLDRIGDQPNDGNTVDL 98
>gnl|CDD|109515 pfam00460, Flg_bb_rod, Flagella basal body rod protein.
Length = 31
Score = 46.8 bits (112), Expect = 5e-06
Identities = 18/29 (62%), Positives = 23/29 (79%)
Query: 6 IAAAGMSAQQTNLEIIANNIANINTTGYK 34
A + ++AQQ L++IANNIAN NTTGYK
Sbjct: 3 TAVSALNAQQIALDVIANNIANANTTGYK 31
>gnl|CDD|31746 COG1558, FlgC, Flagellar basal body rod protein [Cell motility and
secretion].
Length = 137
Score = 46.8 bits (111), Expect = 6e-06
Identities = 17/41 (41%), Positives = 26/41 (63%)
Query: 216 KQGYLEASNVDAVKEISEMISAQRAYEMNSKVIEAADEMSS 256
+GY++ NV+ V E+ +MISA R+YE N +V+ A M
Sbjct: 90 AKGYVKMPNVNVVIEMVDMISASRSYEANVEVLNTAKSMMQ 130
Score = 42.2 bits (99), Expect = 2e-04
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 2 KAFMIAAAGMSAQQTNLEIIANNIANINTTG------YKRARAEFADFLYQAEKVAGSPS 55
F IA + +SAQ L +I++NIAN ++T Y+R + F+ L+ G
Sbjct: 5 SIFNIAGSALSAQSLRLNVISSNIANADSTRTPDGGPYRRKQVVFSAELFAPTGATGGAG 64
Query: 56 QSADKAV 62
K V
Sbjct: 65 VKVSKIV 71
>gnl|CDD|31448 COG1256, FlgK, Flagellar hook-associated protein [Cell motility
and secretion].
Length = 552
Score = 41.5 bits (97), Expect = 2e-04
Identities = 20/82 (24%), Positives = 39/82 (47%), Gaps = 16/82 (19%)
Query: 3 AFMIAAAGMSAQQTNLEIIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADKAV 62
A +G++A Q L++ +NI+N NT GY R R Q+ +
Sbjct: 6 LLNTALSGLNAAQAALDVTGHNISNANTPGYSRQRV----------------IQTTNIPY 49
Query: 63 VPEGISIGSGVQISSVRNVYTQ 84
+ G+++G+GV + S++ + +
Sbjct: 50 LGGGLNVGTGVNVVSIQRLRDE 71
Score = 31.9 bits (72), Expect = 0.20
Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 215 VKQGYLEASNVDAVKEISEMISAQRAYEMNSKVIEAADEM-SSLITKMR 262
+ S V+ +E++ +I Q+AY+ ++KVI+ DEM +L+ +
Sbjct: 504 LTSERQSISGVNLDEEMANLIQFQQAYQASAKVIQTVDEMLDTLLNIVG 552
>gnl|CDD|34113 COG4412, COG4412, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 760
Score = 36.2 bits (83), Expect = 0.008
Identities = 29/132 (21%), Positives = 42/132 (31%), Gaps = 10/132 (7%)
Query: 7 AAAGMSAQQTNLEIIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADKAVVPEG 66
AA G NL + N ++ A LY K S D VPEG
Sbjct: 128 AADGEKVYDKNLTNLIN-FPDLPLV-MNPLTAPDTGMLYLQYK----SSHYQDYVFVPEG 181
Query: 67 ISIGSGVQISSVRNVYTQGEVVHTGNNLDLALVGRGWFQVETPDKTVMYTRAGSFNIDSK 126
+ + S+ Y Q +G + D + GW+ + + G N
Sbjct: 182 YNGPTSENEISLSAYYGQ----QSGFSYDESGAKEGWYIADKSAAYYGKNKLGVENPSGA 237
Query: 127 GQLVTADGNTLV 138
+LV NT
Sbjct: 238 RKLVKEALNTAA 249
>gnl|CDD|32082 COG1898, RfbC, dTDP-4-dehydrorhamnose 3,5-epimerase and related
enzymes [Cell envelope biogenesis, outer membrane].
Length = 173
Score = 29.5 bits (66), Expect = 0.95
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 8/71 (11%)
Query: 86 EVVHTGNNLDLALVGRGW---FQVETPDKTVMYTRAGSFNIDSKGQLVTADGNTLVPGIV 142
VV + N + G+ FQV + D V+Y ++ + + + D P I
Sbjct: 97 GVVLSAENKRQLYIPPGFAHGFQVLSDDAEVVYKVTEEYDPEHERGIPWND-----PTIG 151
Query: 143 IPEETREIKVS 153
I ++ +S
Sbjct: 152 IDWPLKDPILS 162
>gnl|CDD|111163 pfam02239, Cytochrom_D1, Cytochrome D1 heme domain. Cytochrome cd1
(nitrite reductase) catalyses the conversion of nitrite
to nitric oxide in the nitrogen cycle. This family
represents the d1 heme binding domain of cytochrome cd1,
in which His/Tyr side chains ligate the d1 heme iron of
the active site in the oxidized state.
Length = 369
Score = 29.4 bits (66), Expect = 0.96
Identities = 26/105 (24%), Positives = 41/105 (39%), Gaps = 20/105 (19%)
Query: 127 GQLVTADGNTLVPGIVIPEETREIKV----SRSGQILAVTGKNS---DFQPVGQLLIANF 179
GQ V DG TL VIP TR + R I+A G+ + + G++ + ++
Sbjct: 100 GQYVIMDGRTLELVKVIP--TRGMTGDSPEPRVAAIVASPGRPEFVVNLKDTGEIWLVDY 157
Query: 180 INEAGLRNIGDNLLARTSVSGDPIISNPDDIGFAHVKQGYLEASN 224
+ G NL + D GF + +L A+N
Sbjct: 158 SD-------GKNLKTTFIGAAK----FLHDGGFDPDGRYFLAAAN 191
>gnl|CDD|110005 pfam00972, Flavi_NS5, Flavivirus RNA-directed RNA polymerase.
Flaviviruses produce a polyprotein from the ssRNA
genome. This protein is also known as NS5. This
RNA-directed RNA polymerase possesses a number of short
regions and motifs homologous to other RNA-directed RNA
polymerases.
Length = 649
Score = 28.2 bits (63), Expect = 2.2
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 11/87 (12%)
Query: 127 GQLVTADGNTLVPGIVIPEETREIKVSRSGQILAVTGKNSDFQPVGQLLIANFINEAGLR 186
GQ+VT NT ++++ R + V + P LI EA L
Sbjct: 353 GQVVTYALNTFTNM--------KVQLIRMMEAEGVITADDVENPPLIRLIRV---EAWLE 401
Query: 187 NIGDNLLARTSVSGDPIISNPDDIGFA 213
G+ L R ++SGD + P D F
Sbjct: 402 EHGEERLGRMAISGDDCVVKPLDDRFG 428
>gnl|CDD|36203 KOG0985, KOG0985, KOG0985, Vesicle coat protein clathrin, heavy
chain [Intracellular trafficking, secretion, and
vesicular transport].
Length = 1666
Score = 27.6 bits (61), Expect = 3.2
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 195 RTSVSGDPIISNPDDIGFAHVKQGYLEASNVDAVKEISEMISAQRAYEMNSKVI 248
R +S D I NPD A L+ N+ E S +A+ M+ VI
Sbjct: 62 RRPISADSAIMNPDKKVIALKAGKTLQIFNI-------ERKSKSKAHTMDEDVI 108
>gnl|CDD|146247 pfam03502, Channel_Tsx, Nucleoside-specific channel-forming
protein, Tsx.
Length = 259
Score = 26.9 bits (60), Expect = 6.2
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 6/40 (15%)
Query: 151 KVSRSGQILAVTGKNSDFQPVGQLLIANFINEAGLRNIGD 190
I A+TG + F P G++ IA N GD
Sbjct: 90 TFKPRFSIDALTGDDLSFGPYGEVYIAT------NFNWGD 123
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
0.313 0.130 0.351
Gapped
Lambda K H
0.267 0.0712 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,803,104
Number of extensions: 141856
Number of successful extensions: 251
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 23
Length of query: 262
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 170
Effective length of database: 4,275,709
Effective search space: 726870530
Effective search space used: 726870530
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (25.4 bits)