RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780260|ref|YP_003064673.1| 50S ribosomal protein L4
[Candidatus Liberibacter asiaticus str. psy62]
(207 letters)
>gnl|CDD|180011 PRK05319, rplD, 50S ribosomal protein L4; Provisional.
Length = 205
Score = 242 bits (621), Expect = 4e-65
Identities = 91/205 (44%), Positives = 131/205 (63%), Gaps = 1/205 (0%)
Query: 3 ELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGS 62
EL V NLDG++ G + +S+ +F ++P + +L +V+ Q R G +K RSEV+ G
Sbjct: 2 ELKVLNLDGKEAGEVELSDAVFGVEPNEALLHQVVVAQLANARQGTHATKTRSEVSGGGK 61
Query: 63 KMYVQKGTGRARHSSKSVSQFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCSND 122
K + QKGTGRAR S Q+RGGG FGP P L KKVR LALR ALS+K
Sbjct: 62 KPWRQKGTGRARQGSIRSPQWRGGGVVFGPKPRDYSQKLNKKVRRLALRSALSEKAREGR 121
Query: 123 IMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPNINLLPVQGIN 182
++V+D+L + KTK L + + L L LI+ ++D N L+ARN+PN+++LP QG+N
Sbjct: 122 LVVVDDLSLEAPKTKELAAKLKNLGLKKVLIVTD-EVDENLYLSARNLPNVDVLPAQGLN 180
Query: 183 VYDILRCSKLVLSKSAIEALEDRFK 207
VYD+LR K+VL+K+A++ LE+R
Sbjct: 181 VYDLLRADKVVLTKAAVKKLEERLA 205
>gnl|CDD|184735 PRK14547, rplD, 50S ribosomal protein L4; Provisional.
Length = 298
Score = 115 bits (290), Expect = 7e-27
Identities = 64/203 (31%), Positives = 104/203 (51%), Gaps = 1/203 (0%)
Query: 1 MIELSVRNLDGEDKGVISVSEDIFALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYT 60
M V + G+ G + +F ++ ++ +V+ Q R G +K R+EV
Sbjct: 1 MATCDVLDWQGKKVGSAELPLKVFDVETNIPLIHQVVVAQMAAARQGTHHTKTRAEVRGG 60
Query: 61 GSKMYVQKGTGRARHSSKSVSQFRGGGKAFGPVPIIGVHALPKKVRSLALRHALSDKFCS 120
G K + QKGTGRAR S Q+RGGG GP P PKK+R ALR ALSD+
Sbjct: 61 GKKPWRQKGTGRARQGSIRAPQWRGGGTVHGPRPREYNQRTPKKMRQAALRGALSDRARD 120
Query: 121 NDIMVIDNLVSKE-CKTKYLVTRFRALDLSNALIIDGCQLDRNFQLAARNIPNINLLPVQ 179
N ++V+++L + TK + ++ AL++ + D +L+ RN+ +++L
Sbjct: 121 NRLIVVESLQDGDPPSTKAVAQALSVMEDQRALLVVAERSDAVERLSVRNLARVHVLGAD 180
Query: 180 GINVYDILRCSKLVLSKSAIEAL 202
+N YD+L +V ++SA+EA
Sbjct: 181 QLNTYDVLNVDWVVFTQSALEAF 203
>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional.
Length = 295
Score = 94.6 bits (235), Expect = 2e-20
Identities = 61/165 (36%), Positives = 88/165 (53%), Gaps = 2/165 (1%)
Query: 44 KRIGCSKSKGRSEVAYTGSKMYVQKGTGRARHSSKSVSQFRGGGKAFGPVPIIGVH-ALP 102
+R G K K R+EV+ TG K + QKGTGRAR S F GGG+AFGP P +
Sbjct: 132 RRQGTHKVKTRAEVSGTGKKPWRQKGTGRARAGSTRSPIFVGGGRAFGPTPERNYKLKVN 191
Query: 103 KKVRSLALRHALSDKFCSNDIMVIDNLVSKECKTKYLVTRFRALDLSNALIIDGCQLDRN 162
KKVR A AL+ S + ++D+ ++ TK L+ + L ++N I D N
Sbjct: 192 KKVRFNAFVSALTLLANSKAV-LVDDFKLEKISTKDLIKKLTKLKINNLKHILIVSNDEN 250
Query: 163 FQLAARNIPNINLLPVQGINVYDILRCSKLVLSKSAIEALEDRFK 207
+ARN+ N+ ++ ++V ++ LVLSK +IE LE R K
Sbjct: 251 IFKSARNLQNVIVVKPTSLSVELLIAADVLVLSKESIENLEGRIK 295
>gnl|CDD|179725 PRK04042, rpl4lp, 50S ribosomal protein L4P; Provisional.
Length = 254
Score = 34.8 bits (81), Expect = 0.017
Identities = 66/270 (24%), Positives = 103/270 (38%), Gaps = 82/270 (30%)
Query: 3 ELSVRNLDGEDKGVISVSEDIFALKPQQGILAR-VLRWQSWRKRIGCSKSKGRSEVA--- 58
+ V +LDGE G I + +F + ++ R VL Q+ R + KGR +A
Sbjct: 2 KAKVYDLDGEVVGEIELPA-VFEEPVRPDLIRRAVLAAQTARL-----QPKGRDPLAGKR 55
Query: 59 ----YTGSKMYV-----QKGTGRARHSSKSVSQFRGGGKAFGPVPIIGVH-ALPKKVRSL 108
GS + KG RA V Q GG +A P +H + KK R L
Sbjct: 56 TSAESWGSGRGIARVPRLKGGSRAAF----VPQAVGGRRAHPPKVEKDLHEKINKKERRL 111
Query: 109 ALRHALS---------------DKFCSNDIMVIDNLVSKECKTKYLVTRFRAL----DLS 149
A+R A++ + ++V+D+ S + KTK + L D+
Sbjct: 112 AIRSAIAATANPELVKARGHVFEGVPELPLVVVDDFESLK-KTKEVRELLEKLGLYDDVE 170
Query: 150 NA------------------------LIIDGCQLDRNFQLAARNIPNINLLPVQGINVYD 185
A LI+ D AARN+P ++++ V +NV
Sbjct: 171 RAKEGKKIRAGKGKMRGRRYKKPKSVLIVVSD--DSPIVKAARNLPGVDVVTVDNLNVEH 228
Query: 186 I--------LRCSKLVLSKSAIEALEDRFK 207
+ L V ++SAIE L +RF+
Sbjct: 229 LAPGGHPGRL----TVWTESAIEELRERFE 254
>gnl|CDD|163387 TIGR03672, rpl4p_arch, 50S ribosomal protein L4P. One of the
primary rRNA binding proteins, this protein initially
binds near the 5'-end of the 23S rRNA. It is important
during the early stages of 50S assembly. It makes
multiple contacts with different domains of the 23S rRNA
in the assembled 50S subunit and ribosome.
Length = 251
Score = 29.9 bits (68), Expect = 0.53
Identities = 59/262 (22%), Positives = 97/262 (37%), Gaps = 71/262 (27%)
Query: 3 ELSVRNLDGEDKGVISVSEDIFALKPQQGILAR-VLRWQSWRKRIGCSKSKGRSEVA--- 58
+ V +LDGE G I + +F + ++ R VL Q+ R + G A
Sbjct: 2 KAKVYDLDGEVVGEIELPA-VFEEPVRPDLIKRAVLAAQTNRL-----QPYGADPYAGKR 55
Query: 59 YTG---------SKMYVQKGTGRARHSSKSVSQFRGGGKAFGPVP-IIGVHALPKKVRSL 108
+ +++ KG RA V Q GG +A P + KK R L
Sbjct: 56 TSAESWGSGRGIARVPRIKGGSRAAR----VPQAVGGRRAHPPKVEKDLHEKINKKERRL 111
Query: 109 ALRHALS------------DKFCSNDI-MVIDNLVSKECKTKYLVTRFRALDLS------ 149
A+R A++ F +++ +V+ + KTK + AL +
Sbjct: 112 AIRSAIAATADPELVKARGHVFEGDELPIVVVDDFESLKKTKEVRELLEALGVYDDIERA 171
Query: 150 ----------------------NALIIDGCQLDRNFQLAARNIPNINLLPVQGINVYDIL 187
+ LI+ G D AARN+P ++++ V +NV +
Sbjct: 172 KEGKKIRAGKGKMRGRRYKEPKSVLIVVGD--DSGISKAARNLPGVDVVTVNNLNVEHLA 229
Query: 188 RCSK----LVLSKSAIEALEDR 205
V ++SAIE LE+R
Sbjct: 230 PGGHPGRLTVWTESAIEKLEER 251
>gnl|CDD|179523 PRK02999, PRK02999, malate synthase G; Provisional.
Length = 726
Score = 28.6 bits (65), Expect = 1.1
Identities = 12/23 (52%), Positives = 14/23 (60%), Gaps = 6/23 (26%)
Query: 30 QGILARVLRW--QSWRKRIGCSK 50
QGIL V+RW Q +GCSK
Sbjct: 602 QGILGYVVRWVDQG----VGCSK 620
>gnl|CDD|179011 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 27.4 bits (62), Expect = 2.7
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 3 ELSVRNLDGEDKGVISVSEDIFALK 27
+SVR G+D G +S+ E I L
Sbjct: 605 TVSVRRRGGKDLGTMSLDEFIERLL 629
>gnl|CDD|183068 PRK11273, glpT, sn-glycerol-3-phosphate transporter; Provisional.
Length = 452
Score = 27.4 bits (61), Expect = 2.8
Identities = 11/18 (61%), Positives = 14/18 (77%), Gaps = 3/18 (16%)
Query: 90 FGPVPIIGVHAL---PKK 104
+GPV +IG+HAL PKK
Sbjct: 362 YGPVMLIGLHALELAPKK 379
>gnl|CDD|178083 PLN02464, PLN02464, glycerol-3-phosphate dehydrogenase.
Length = 627
Score = 27.1 bits (60), Expect = 3.4
Identities = 13/39 (33%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 25 ALKPQQGILARVLRWQSWRKRIGCSKSKGRSEVAYTGSK 63
AL ILA W RK+ K+K E + SK
Sbjct: 580 ALPRVVEILAAEHGWDKSRKKQELQKAKEFLE-TFKSSK 617
>gnl|CDD|129795 TIGR00712, glpT, glycerol-3-phosphate transporter. This model
describes a very hydrophobic protein, predicted to span
the membrane at least 8 times. The two members confirmed
experimentally as glycerol-3-phosphate transporters,
from E. coli and B. subtilis, share more than 50 % amino
acid identity. Proteins of the hexose phosphate and
phosphoglycerate transport systems are also quite
similar.
Length = 438
Score = 26.3 bits (58), Expect = 5.9
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 3/23 (13%)
Query: 90 FGPVPIIGVHAL---PKKVRSLA 109
+GPV +IG+HAL PKK A
Sbjct: 360 YGPVMLIGLHALELAPKKAAGTA 382
>gnl|CDD|130412 TIGR01345, malate_syn_G, malate synthase G. This model describes
the G isozyme of malate synthase. Isocitrate synthase
and malate synthase form the glyoxylate shunt, which
generates additional TCA cycle intermediates.
Length = 721
Score = 26.4 bits (58), Expect = 6.0
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 30 QGILARVLRWQSWRKRIGCSK 50
QGIL V+RW + IGCSK
Sbjct: 599 QGILGYVVRWV--EQGIGCSK 617
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 0.137 0.397
Gapped
Lambda K H
0.267 0.0776 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,296,622
Number of extensions: 200816
Number of successful extensions: 309
Number of sequences better than 10.0: 1
Number of HSP's gapped: 302
Number of HSP's successfully gapped: 14
Length of query: 207
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,071,361
Effective search space: 480420598
Effective search space used: 480420598
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 (24.9 bits)