RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6338
(135 letters)
>3hy0_A Alanyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, protein
biosynthesis, NUC binding, amino acid-binding,
ATP-binding, metal-binding; HET: G5A EPE; 1.90A
{Escherichia coli} PDB: 3hxz_A* 3hy1_A* 3hxv_A* 3hxu_A*
3hxw_A* 3hxx_A* 3hxy_A*
Length = 441
Score = 139 bits (352), Expect = 1e-40
Identities = 58/149 (38%), Positives = 76/149 (51%), Gaps = 26/149 (17%)
Query: 1 MLGNWSFNDYYKRDACRMALEFLTKPPV-SLPLDRLYFTYFGGSDQYGLPCDEETLDIWL 59
MLGN+SF DY+K DA A LT +LP +RL+ T + D+E +IW
Sbjct: 92 MLGNFSFGDYFKLDAILFAWLLLTSEKWFALPKERLWVTVY--------ESDDEAYEIWE 143
Query: 60 -ELGVPRDHIKKEGMKC-------NFWEMGSTGPCGYSSEIHYDM-----KGEPSSALAR 106
E+G+PR+ I + G NFW+MG TGPCG +EI YD G P S
Sbjct: 144 KEVGIPRERIIRIGDNKGAPYASDNFWQMGDTGPCGPCTEIFYDHGDHIWGGPPGS---- 199
Query: 107 VNADRNDLIEIWNIVFISHKRVSADTIVP 135
D + IEIWNIVF+ R + T+ P
Sbjct: 200 PEEDGDRYIEIWNIVFMQFNRQADGTMEP 228
>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
amino acid binding, ligase; 2.08A {Aquifex aeolicus}
SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
1ygb_A 3htz_A
Length = 465
Score = 136 bits (345), Expect = 2e-39
Identities = 52/136 (38%), Positives = 76/136 (55%), Gaps = 18/136 (13%)
Query: 1 MLGNWSFNDYYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWL- 59
MLGN+SF DY+K++A A EF+T+ + LP ++LY + + DEE IW
Sbjct: 93 MLGNFSFGDYFKKEAIEYAWEFVTEV-LKLPKEKLYVSVYKD--------DEEAYRIWNE 143
Query: 60 ELGVPRDHIKKEGMKCNFWEMGSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLIEIWN 119
+G+P + I + G + NFW+MG GPCG SSEI+ D GE +R +EIWN
Sbjct: 144 HIGIPSERIWRLGEEDNFWQMGDVGPCGPSSEIYVDR-GEEYE-----GDER--YLEIWN 195
Query: 120 IVFISHKRVSADTIVP 135
+VF+ + R + P
Sbjct: 196 LVFMQYNRDENGVLTP 211
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 76.5 bits (189), Expect = 2e-17
Identities = 21/139 (15%), Positives = 34/139 (24%), Gaps = 61/139 (43%)
Query: 1 MLGNWSFND-----YYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETL 55
M+ + +FN Y+K + E L
Sbjct: 147 MMAHHAFNYPGKEIYWKNETVAYCTELLN------------------------------- 175
Query: 56 DIWLELGVPRDHI-KKEGMKCNFWEMGSTGPCGYSSEIHYD-----------MKGEPSSA 103
ELGV ++ I KE W G G G E ++ P
Sbjct: 176 ----ELGVKKEDIVYKE----EPWAGG--GNAGPCLEAIVGGLEVATLVFMNLEEHPEGD 225
Query: 104 LARVNADRNDLIEIWNIVF 122
+ ++ N +
Sbjct: 226 I---EIKGARYRKMDNYIV 241
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 45.9 bits (107), Expect = 8e-07
Identities = 22/130 (16%), Positives = 38/130 (29%), Gaps = 62/130 (47%)
Query: 1 MLGNWSFND-----YYKRDACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETL 55
M+ + +FN Y+ + +A EF TK
Sbjct: 147 MMAHHAFNYPGXPIYWMDETVELAFEFFTK------------------------------ 176
Query: 56 DIWLELGVPRDHIKKEGMKCNFWEMGSTGPCGYSSEIHYDMKGEPSSALARVNADRNDLI 115
EL + + I + N W G G G + E+ Y +
Sbjct: 177 ----ELXMXPEDITFKE---NPWAGG--GNAGPAFEVLY------------------RGL 209
Query: 116 EIWNIVFISH 125
E+ +VF+ +
Sbjct: 210 EVATLVFMQY 219
>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 = 31.9 bits (72), Expect = 0.056
Identities = 24/160 (15%), Positives = 46/160 (28%), Gaps = 56/160 (35%)
Query: 21 EFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHIK----------- 69
++L P+S PL + Y + + L G R ++K
Sbjct: 229 DYLLSIPISCPL--IGVIQLA---HYVVTA--KLLG--FTPGELRSYLKGATGHSQGLVT 279
Query: 70 -----------------KEGMKCNFWEMG-----STGPCGYSSEIHYD----MKGEPSSA 103
++ + F+ +G + I D +G PS
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFF-IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338
Query: 104 LARVNADRNDL---IEIWNIVFISHKRV------SADTIV 134
L+ N + + + N + K+V A +V
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV 378
Score = 31.6 bits (71), Expect = 0.073
Identities = 22/124 (17%), Positives = 37/124 (29%), Gaps = 48/124 (38%)
Query: 3 GNW-SFNDYYKRDACRMALEFL---------TKPPVSLPLDRLYFTYFGGSDQYGLPCDE 52
+W SF + R A+ L P SLP L + L +E
Sbjct: 287 DSWESFFV-----SVRKAITVLFFIGVRCYEAYPNTSLPPSIL---------EDSLENNE 332
Query: 53 ET----LDIWLELGVPRDHIKKEGMKCNFWEMGSTGPCGYSSEIHYDMKGEPSSALARVN 108
L I + ++ ++ K N S P ++ ++ VN
Sbjct: 333 GVPSPMLSI---SNLTQEQVQDYVNKTN-----SHLPA--GKQVE----------ISLVN 372
Query: 109 ADRN 112
+N
Sbjct: 373 GAKN 376
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 27.7 bits (61), Expect = 1.1
Identities = 11/42 (26%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 93 HYDMKGEPSSALARVNADRNDLIEIWNIVFISHKRVSADTIV 134
H + A R NDL+ N I + + D IV
Sbjct: 310 HLQSGLVTTIAEGREKFRSNDLL---NGRDIDNHLIKVDNIV 348
>3kbh_E Spike glycoprotein; beta sandwich, envelope protein, fusion
protein, glycoprotei virus interaction, membrane,
transmembrane, virion; HET: NAG; 3.31A {Human
coronavirus NL63}
Length = 136
Score = 25.9 bits (56), Expect = 4.2
Identities = 9/36 (25%), Positives = 14/36 (38%)
Query: 14 DACRMALEFLTKPPVSLPLDRLYFTYFGGSDQYGLP 49
+C LE + LY T+ G+ G+P
Sbjct: 95 GSCNFPLEATWHYTSYTIVGALYVTWSEGNSITGVP 130
>1qn2_A Cytochrome CH; electron transport; HET: HEC; 2.01A
{Methylobacterium extorquens} SCOP: a.3.1.1
Length = 100
Score = 24.4 bits (54), Expect = 7.8
Identities = 8/37 (21%), Positives = 14/37 (37%), Gaps = 2/37 (5%)
Query: 37 FTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGM 73
+ + + GL D+ L WL P+ + M
Sbjct: 44 YAFSDALKKSGLTWDQADLKQWLA--DPKKKVPGTKM 78
>1co6_A Protein (cytochrome C2); electron transport(heme protein); HET:
HEM; 1.60A {Blastochloris viridis} SCOP: a.3.1.1 PDB:
1cry_A* 1io3_A*
Length = 107
Score = 24.5 bits (54), Expect = 8.8
Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 4/41 (9%)
Query: 37 FTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGMKCNF 77
F Y + G+ EE ++ P+ I G K F
Sbjct: 45 FAYSDANKNSGITWTEEVFREYIR--DPKAKIP--GTKMIF 81
>1mvl_A PPC decarboxylase athal3A; flavoprotein, active site mutant
C175S; HET: FMN; 2.00A {Arabidopsis thaliana} SCOP:
c.34.1.1 PDB: 1mvn_A* 1e20_A*
Length = 209
Score = 24.9 bits (55), Expect = 9.2
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 14/50 (28%)
Query: 19 ALEFLTKPPVSLPLDRLYFTYFGGSDQYGLPCDEETLDIWLELGVPRDHI 68
+L FL +SLP + L DE+ W ++G P HI
Sbjct: 56 SLHFLD--KLSLPQE------------VTLYTDEDEWSSWNKIGDPVLHI 91
>1hro_A Cytochrome C2; electron transport, photosynthesis, heme; HET:
HEM; 2.20A {Rhodopila globiformis} SCOP: a.3.1.1
Length = 106
Score = 24.5 bits (54), Expect = 9.5
Identities = 6/37 (16%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 37 FTYFGGSDQYGLPCDEETLDIWLELGVPRDHIKKEGM 73
+ Y + + G+ + L ++E P+ + M
Sbjct: 50 YNYSEANIKSGIVWTPDVLFKYIE--HPQKIVPGTKM 84
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
0.321 0.140 0.457
Gapped
Lambda K H
0.267 0.0475 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,210,736
Number of extensions: 122595
Number of successful extensions: 257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 21
Length of query: 135
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 51
Effective length of database: 4,356,429
Effective search space: 222177879
Effective search space used: 222177879
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 (21.8 bits)
S2: 52 (24.4 bits)