RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18006
(180 letters)
>3l4g_B Phenylalanyl-tRNA synthetase beta chain; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A
{Homo sapiens}
Length = 589
Score = 203 bits (517), Expect = 6e-63
Identities = 98/156 (62%), Positives = 122/156 (78%)
Query: 1 MCLQTKILGSGAEVSVSIPPTRHDIIHTCDIYEDIAIAYGYNNIPKTMPRFASIARQVPL 60
M L+++++G G ++ + IPPTR DIIH CDI ED AIAYGYNNI T+P+ +IA Q PL
Sbjct: 334 MYLKSEVIGDGNQIEIEIPPTRADIIHACDIVEDAAIAYGYNNIQMTLPKTYTIANQFPL 393
Query: 61 NKLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIPAVHIGNPKTLEFQIARTT 120
NKL++ LR D+A AGFTE LTFALCS++D++ KL + AVHI NPKT EFQ+ARTT
Sbjct: 394 NKLTELLRHDMAAAGFTEALTFALCSQEDIADKLGVDISATKAVHISNPKTAEFQVARTT 453
Query: 121 LVPGLLKTLAANKKMPLPLKLFEISDIVYKDATAGT 156
L+PGLLKT+AAN+KMPLPLKLFEISDIV KD+
Sbjct: 454 LLPGLLKTIAANRKMPLPLKLFEISDIVIKDSNTDV 489
>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer,
phenylalanine, aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus
haemolyticus} PDB: 2rhs_B*
Length = 795
Score = 99.5 bits (249), Expect = 7e-25
Identities = 40/160 (25%), Positives = 73/160 (45%), Gaps = 16/160 (10%)
Query: 3 LQTKILGSGAEVSVSIPPTRHDIIHTCDIYEDIAIAYGYNNIPKTMPRFASIA------R 56
L + G ++V++P R DI D+ E++A YGY+ IP ++P F + R
Sbjct: 436 LGFETTLKGETLTVNVPSRRKDITIKEDLIEEVARIYGYDEIPSSLPVFGEVTSGELTDR 495
Query: 57 QVPLNKLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIPAVHIGNPKTLEFQI 116
Q L + L G AG + +T++L S+D + P + + P +
Sbjct: 496 QHKTRTLKETLEG----AGLNQAITYSLVSKDHAK-DFALQER--PTISLLMPMSEAHAT 548
Query: 117 ARTTLVPGLLKTLAAN--KKMPLPLKLFEISDIVYKDATA 154
R +L+P L++ A N +K ++L+EI + + +
Sbjct: 549 LRQSLLPHLIEATAYNVARKNK-DVRLYEIGRVFFGNGEG 587
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1
d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B
2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*
Length = 785
Score = 94.9 bits (237), Expect = 3e-23
Identities = 40/147 (27%), Positives = 62/147 (42%), Gaps = 9/147 (6%)
Query: 3 LQTKILGSGAEVSVSIPPTRHDIIHTCDIYEDIAIAYGYNNIPKTMPRFASIARQVPLN- 61
L ++ G G V+ P R D+ D+ E++A GY IP +P F +
Sbjct: 431 LGCRVEGEGPTYRVTPPSHRLDLRLEEDLVEEVARIQGYETIPLALPAFFPAPDNRGVEA 490
Query: 62 --KLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIPAVHIGNPKTLEFQIART 119
+ +LR ++ GF EV T++ +D + R + + NP E RT
Sbjct: 491 PYRKEQRLREVLSGLGFQEVYTYSFMDPEDAR-RFRLDPP---RLLLLNPLAPEKAALRT 546
Query: 120 TLVPGLLKTLAAN--KKMPLPLKLFEI 144
L PGL++ L N P LFE+
Sbjct: 547 HLFPGLVRVLKENLDLDRPERALLFEV 573
>3pco_B Phenylalanyl-tRNA synthetase, beta chain; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP;
3.02A {Escherichia coli}
Length = 795
Score = 92.2 bits (230), Expect = 2e-22
Identities = 36/161 (22%), Positives = 65/161 (40%), Gaps = 16/161 (9%)
Query: 3 LQTKILGSGAEVSVSIPPTRHDIIHTCDIYEDIAIAYGYNNIPKTMPRFASIA-----RQ 57
L ++ E P R D+ D+ E++A YGYNNIP + + I
Sbjct: 433 LGCEVTEGKDEWQAVAPSWRFDMEIEEDLVEEVARVYGYNNIPDEPVQASLIMGTHREAD 492
Query: 58 VPLNKLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIPAVHIGNPKTLEFQIA 117
+ L ++ L G+ EV+T++ + + A+ + +P ++E
Sbjct: 493 LSLKRVKTLLND----KGYQEVITYSFVDPKV----QQMIHPGVEALLLPSPISVEMSAM 544
Query: 118 RTTLVPGLLKTLA--ANKKMPLPLKLFEISDIVYKDATAGT 156
R +L GLL T+ N++ +++FE D A
Sbjct: 545 RLSLWTGLLATVVYNQNRQQN-RVRIFESGLRFVPDTQAPL 584
>2cxi_A Phenylalanyl-tRNA synthetase beta chain; aminoacyl-tRNA synthetase,
ligase, structural genomics; HET: MSE; 1.94A {Pyrococcus
horikoshii}
Length = 348
Score = 59.5 bits (144), Expect = 4e-11
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 1 MCLQTKILGSGAEVSVSIPPTRHDIIHTCDIYEDIAIAYGY 41
M + +I S + P R DI+H DI ED+ IAYGY
Sbjct: 310 MMYEVEI--SRGRAKLKYPAFRDDIMHARDILEDVLIAYGY 348
>3ica_A Phenylalanyl-tRNA synthetase beta chain; APC61692.1,
phenylalanyl-tRNA SYNT beta subunit, structural
genomics, PSI-2; HET: TAM; 2.44A {Porphyromonas
gingivalis}
Length = 213
Score = 53.0 bits (128), Expect = 3e-09
Identities = 29/94 (30%), Positives = 43/94 (45%), Gaps = 15/94 (15%)
Query: 56 RQVPLNKLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIP---AVHIGNPKTL 112
R +S+QL G AGF E+L +L + + ++ P AV + NP +
Sbjct: 6 RYKWQTVVSEQLVG----AGFNEILNNSL-----TAGSYYEGLKSHPREMAVELMNPLSQ 56
Query: 113 EFQIARTTLVPGLLKTLA--ANKKMPLPLKLFEI 144
E R TL+ G L+TL+ +K L LFE
Sbjct: 57 ELNCMRQTLLFGGLETLSHNLRRKHL-SLYLFEW 89
>3ig2_A Phenylalanyl-tRNA synthetase beta chain; phers, MCSG, structural
genomics, midwest center for structural GE protein
structure initiative; HET: MSE; 2.09A {Bacteroides
fragilis}
Length = 213
Score = 52.3 bits (126), Expect = 6e-09
Identities = 28/110 (25%), Positives = 44/110 (40%), Gaps = 11/110 (10%)
Query: 61 NKLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIP---AVHIGNPKTLEFQIA 117
NKL + + + GF E+L +L +E P V + NP + +
Sbjct: 7 NKLQNLVAEQLVGCGFNEILNNSL-----TRAAYYDGLESYPSKNLVMLLNPLSADLNCM 61
Query: 118 RTTLVPGLLKTLA--ANKKMPLPLKLFEISDIVYKDATAGTLMFTPGGNR 165
R TL+ G L+++A AN+K LK FE + + DA
Sbjct: 62 RQTLLFGGLESIAHNANRKNA-DLKFFEFGNCYHFDAEKKNPEKVLAPYS 110
>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 = 31.6 bits (71), Expect = 0.15
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 142 FEISDIVYKDATAGTLMFT-PGGNRTRD 168
F I DIV + T+ F G R R+
Sbjct: 1659 FSILDIVINNPVNLTIHFGGEKGKRIRE 1686
Score = 30.8 bits (69), Expect = 0.27
Identities = 35/204 (17%), Positives = 59/204 (28%), Gaps = 62/204 (30%)
Query: 7 ILGSGA-EVSVSIPPTRHDIIHTCDIYED-IAI------AYGYNNIPKTMP----RFAS- 53
L G+ E + +P + E I + ++ P T +F
Sbjct: 10 TLSHGSLEHVLLVPTASF--FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 54 IARQVPLNKLSDQLRGDIAQAGFTEVLTFALCSRDDVSVKLRQKMEFIPAVHIGNPKTLE 113
++ V +K+ F +VL L + + L +H L
Sbjct: 68 VSSLVEPSKVGQ----------FDQVLNLCL--TEFENCYLEGN-----DIH-----ALA 105
Query: 114 FQI---ARTTL--VPGLLKT-LAANKKMPLPLKLFEISDIVYKDATAGT----LMFTPGG 163
++ TTL L+K + A P S + ++ G +F GG
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL-FRAVGEGNAQLVAIF--GG 162
Query: 164 --NRT------RDLAISRQTRYRP 179
N RDL Y
Sbjct: 163 QGNTDDYFEELRDL----YQTYHV 182
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 30.6 bits (68), Expect = 0.28
Identities = 26/170 (15%), Positives = 51/170 (30%), Gaps = 45/170 (26%)
Query: 41 YNNIPKTMPRFASIARQVPLNKLSD---QLR--GDIA---QAGF------TEV------- 79
YN+ ++R P KL +LR ++ G +V
Sbjct: 120 YNDNQVFAKYN--VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 80 ---------LTFALCSRDDVSVKLRQKMEF-IPAVHIGNPKTLEFQIARTTLVPGLLKTL 129
L C+ + +++ QK+ + I R + L+ L
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 130 AANKKMP--LPLKLFEISDI-VYK--DATAGTLMFTPGGNRTRDLAISRQ 174
+K L L L + + + + + L+ T TR ++
Sbjct: 238 LKSKPYENCL-LVLLNVQNAKAWNAFNLSCKILL-T-----TRFKQVTDF 280
Score = 29.4 bits (65), Expect = 0.73
Identities = 9/85 (10%), Positives = 31/85 (36%), Gaps = 20/85 (23%)
Query: 30 DIYEDIAIAYGYNNIPKTMPRFASIARQVPLNKLSDQLRGDIAQAGFTEVLTFALCSRD- 88
+++ +++ P + I + L+ + + ++ ++L +
Sbjct: 373 KMFDRLSV------FPPSAH----IPTIL-LSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 89 --------DVSVKLRQKMEFIPAVH 105
+ ++L+ K+E A+H
Sbjct: 422 KESTISIPSIYLELKVKLENEYALH 446
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 1.1
Identities = 12/40 (30%), Positives = 14/40 (35%), Gaps = 19/40 (47%)
Query: 133 KKMPLPLKLFEISDIVYKDATAGTLMFTPGGNRTRDLAIS 172
KK+ LKL Y D +A P LAI
Sbjct: 23 KKLQASLKL-------YADDSA------PA------LAIK 43
>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B
O-methyl tyrosine binding, magnesium binding,
aminoacylatio esterification; HET: 0A1 ANP; 1.75A
{Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A*
2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A*
Length = 290
Score = 28.3 bits (63), Expect = 1.3
Identities = 23/107 (21%), Positives = 38/107 (35%), Gaps = 16/107 (14%)
Query: 45 PKTMPRFASIARQVPLNKLSDQLRGDIAQAGFTEVLTFALCSRD------DVSVKLRQKM 98
K + + + R+ L KL ++ GF E+ + L + + K
Sbjct: 64 KKDLQQIYAEERENYLGKLEREITRFFVDRGFLEIKSPILIPLEYIERMGIDNDTELSKQ 123
Query: 99 EFIPAVHIGNPKTLEFQIARTTLVPGLLKTLAANKK-MPLPLKLFEI 144
F + L R L P L L + +P P+K+FEI
Sbjct: 124 IF----RVDKNFCL-----RPMLTPNLYNYLRKLDRALPDPIKIFEI 161
>3ukn_A Novel protein similar to vertebrate potassium VOL channel,
subfamily H (EAG-related)...; KCNH, ELK, ERG, CNBD,
CNBHD, C-linker, ION channel; 2.20A {Danio rerio} PDB:
3ukt_B 3ukv_B
Length = 212
Score = 27.3 bits (61), Expect = 2.1
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 60 LNKLSDQLRGDIAQAGFTEVLT---FALCSR---DDVSVKLRQKMEFIP 102
L D+LR DIA E+L F SR +S+ ++ P
Sbjct: 58 LKDFPDELRADIAMHLNKELLQLPLFESASRGCLRSLSLIIKTSF-CAP 105
>4f8a_A Potassium voltage-gated channel subfamily H membe; probable
regulatory domain of potassium channel, membrane PR
transport protein; 2.20A {Mus musculus}
Length = 160
Score = 26.9 bits (60), Expect = 2.9
Identities = 9/50 (18%), Positives = 16/50 (32%), Gaps = 8/50 (16%)
Query: 60 LNKLSDQLRGDIAQAGFTEVLT----FALCSR---DDVSVKLRQKMEFIP 102
L +R DI +V F L S ++++ + P
Sbjct: 9 LQICPKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVH-CAP 57
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 26.6 bits (58), Expect = 4.0
Identities = 12/73 (16%), Positives = 28/73 (38%), Gaps = 14/73 (19%)
Query: 10 SGAEVSVSIPPTRHDIIHTCDIYEDIAIAYGYNNIPKTMPRFASIARQVPLNKLSDQLRG 69
SG E+S + + ++ + +E+IAI +P ++ ++ +D
Sbjct: 149 SGLELSDTKQKGKKFLVIAYEPFENIAIE-----LP---------PNEILFSENNDMDNN 194
Query: 70 DIAQAGFTEVLTF 82
+ + TF
Sbjct: 195 NDGVDELNKKCTF 207
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
0.322 0.137 0.398
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,701,204
Number of extensions: 154837
Number of successful extensions: 192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 183
Number of HSP's successfully gapped: 19
Length of query: 180
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 92
Effective length of database: 4,244,745
Effective search space: 390516540
Effective search space used: 390516540
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: 54 (24.6 bits)