RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6733
(257 letters)
>3v5u_A Uncharacterized membrane protein MJ0091; lipid cubic phase, cation
protein complex, sodium,calcium EX membrane protein;
HET: OLC MYS 1PE; 1.90A {Methanocaldococcus jannaschii}
PDB: 3v5s_A*
Length = 320
Score = 81.1 bits (201), Expect = 3e-18
Identities = 29/132 (21%), Positives = 55/132 (41%), Gaps = 14/132 (10%)
Query: 104 RYLIVSSIVPGSTLGIPDTVMGLTFVAAGVSVPDALSSLAVVKEGYGDMAVSNAVGSNVF 163
+ + L I D V+G T VA G S+P+ + SLA K G M + N +GSN+
Sbjct: 180 ELFVDGAKKIALALDISDKVIGFTLVAFGTSLPELMVSLAAAKRNLGGMVLGNVIGSNIA 239
Query: 164 DILVCLGLPWFLQTAIIKPGSHVNVYSKGLTYSTISLFSTVVFLISATHMNGWKLDRRYG 223
DI L + ++ + + + + + +++ + A K+ R G
Sbjct: 240 DIGGALAV-----GSLFMH---LPAENVQM---AVLVIMSLLLYLFAK---YSKIGRWQG 285
Query: 224 AILMMWYFVFLI 235
+ + Y + +
Sbjct: 286 ILFLALYIIAIA 297
Score = 72.6 bits (179), Expect = 4e-15
Identities = 27/132 (20%), Positives = 55/132 (41%), Gaps = 12/132 (9%)
Query: 105 YLIVSSIVPGSTLGIPDTVMGLTFVAAGVSVPDALSSLAVVKEGYGDMAVSNAVGSNVFD 164
+ ++ S + + V+G T +A G S+P+ L+S +++ NA+GS + +
Sbjct: 22 WFVLGSERIARHFNVSNFVIGATVMAIGTSLPEILTSAYASYMHAPGISIGNAIGSCICN 81
Query: 165 ILVCLGLPWFLQTAIIKPGSHVNVYSKGLTYSTISLFSTVVFLISATHMNGWKLDRRYGA 224
I + LGL +AII P + V + L + + G
Sbjct: 82 IGLVLGL-----SAIISP---IIVDKNLQKNILVYLLFVIFAAVIGID----GFSWIDGV 129
Query: 225 ILMMWYFVFLIV 236
+L++ + ++L
Sbjct: 130 VLLILFIIYLRW 141
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 34.3 bits (78), Expect = 0.042
Identities = 45/270 (16%), Positives = 76/270 (28%), Gaps = 100/270 (37%)
Query: 20 YCT-ATLAATLDKQTLPPCLTPHPVGTSRCQPHYPYPATCSI----HHAGREGPKKFRDC 74
Y T L L + L+ T + + +I + K +
Sbjct: 177 YQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQ--GLNILEWLENPSNTPDKDYLLS 233
Query: 75 TPFTFASVCSGISVYSLLIMVWMITIVCYRYLIVSSIVPGSTLG-IPDTVMGLTFVAAGV 133
P + C I V L Y +V++ + G T G + + G T + G+
Sbjct: 234 IPIS----CPLIGVIQL---------AHY---VVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 134 -----------------SVPDALSSL----AVVKEGYGDMAVSNAVGSNVFD-------- 164
SV A++ L E Y + ++ ++ + +
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 165 ILVCLGLPW-FLQTAIIK------PGSHVNVYSKGLTYSTISLFSTVVFLISATHMNGWK 217
+L L +Q + K G V ISL NG
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVE----------ISLV------------NG-- 373
Query: 218 LDRRYGAILMMWYFVFLIVG---SLYELNV 244
+ V + G SLY LN+
Sbjct: 374 -AKN---------LV--VSGPPQSLYGLNL 391
Score = 26.9 bits (59), Expect = 9.3
Identities = 28/131 (21%), Positives = 41/131 (31%), Gaps = 43/131 (32%)
Query: 66 EGPKKFRDCTPFT----FA------------------SVCSGISV--YSLL-----IMVW 96
K T FT + +G S+ Y+ L +M
Sbjct: 1720 RSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSI 1779
Query: 97 --MITIVCYRYLIVSSIVPGSTLGIPDTVM---GLTFVAAGVSVPDALSSLAVVKEGYGD 151
++ +V YR + + VP LG + M VAA S +AL VV+
Sbjct: 1780 ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ-EALQ--YVVER---- 1832
Query: 152 MAVSNAVGSNV 162
V G V
Sbjct: 1833 --VGKRTGWLV 1841
>2ajg_A Leucyl-tRNA synthetase; editing domain, ligase; 2.00A {Escherichia
coli} PDB: 2ajh_A 2aji_A
Length = 196
Score = 27.5 bits (62), Expect = 3.9
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 120 PDTVMGLTFVA 130
PDT MG T++A
Sbjct: 33 PDTFMGCTYLA 43
>1gxj_A SMC, chromosome segregation SMC protein; SMC dimerisation domain,
anti parallel coiled coil, SMC proteins; 2.0A
{Thermotoga maritima} SCOP: d.215.1.1 PDB: 1gxk_A
Length = 186
Score = 26.8 bits (60), Expect = 6.0
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 138 ALSSLAVVKEGYGDMAVSNAVGSNVFDILV 167
+S+L V E Y +AVS +G +I+V
Sbjct: 35 VVSNLIEVDEKY-SLAVSVLLGGTAQNIVV 63
>3fg1_A Allene oxide synthase-lipoxygenase protein; arichidonic metabolism,
dioxygenase, fatty ACI biosynthesis, heme, iron, lipid
synthesis, lyase; HET: GOL; 1.85A {Plexaura homomalla}
PDB: 3fg4_A* 3fg3_A* 2fnq_A
Length = 696
Score = 27.2 bits (59), Expect = 7.5
Identities = 10/55 (18%), Positives = 12/55 (21%), Gaps = 5/55 (9%)
Query: 5 GPGGADTDVFCPTAKYCTATLAA-----TLDKQTLPPCLTPHPVGTSRCQPHYPY 54
G GG + L LP L V P + Y
Sbjct: 436 GSGGIVDQSLSLGGGGHVTFMEKCFKEVNLQDYHLPNALKKRGVDDPSKLPGFYY 490
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding,
protein biosynthesis I aminoacyl-tRNA synthetase,
ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A
4ari_A* 4as1_A*
Length = 880
Score = 26.8 bits (60), Expect = 8.3
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 120 PDTVMGLTFVA 130
PDT MG T++A
Sbjct: 270 PDTFMGCTYLA 280
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.325 0.139 0.452
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,026,912
Number of extensions: 235493
Number of successful extensions: 492
Number of sequences better than 10.0: 1
Number of HSP's gapped: 488
Number of HSP's successfully gapped: 16
Length of query: 257
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 165
Effective length of database: 4,133,061
Effective search space: 681955065
Effective search space used: 681955065
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.2 bits)