RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3837
(93 letters)
>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 = 35.8 bits (82), Expect = 8e-04
Identities = 13/84 (15%), Positives = 30/84 (35%), Gaps = 27/84 (32%)
Query: 27 RDKIVLERESIRTLCDKLRKERD---------------------RAVSDLAEALRDSDNI 65
R +E+++ + +++ K RA+ + L + I
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL---NFI 1872
Query: 66 KKQKNETSKELKV--LKEKMEAQV 87
K QK + + L+ E++E +
Sbjct: 1873 KLQKIDIIE-LQKSLSLEEVEGHL 1895
>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 = 29.1 bits (64), Expect = 0.13
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 33 ERESIRTLCDKLRKERDRAVSDLAEAL 59
E+++++ L L+ D D A AL
Sbjct: 18 EKQALKKLQASLKLYAD----DSAPAL 40
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 28.7 bits (65), Expect = 0.20
Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 16 SKRRRDWAFSERDKIV---LERESIRTLCDKLRKERDRAVSDLAEALR---DSDNIKKQK 69
S+++R + D+I+ E +R D+ K+ + ++ + + D+ ++ +K
Sbjct: 21 SQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQKEIGKRFKAKEDAKDLIAEK 80
Query: 70 NETSKELKVLKEKM-EAQVELER 91
+ S E K + EK EA L
Sbjct: 81 EKLSNEKKEIIEKEAEADKNLRS 103
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 28.9 bits (65), Expect = 0.22
Identities = 10/80 (12%), Positives = 26/80 (32%), Gaps = 3/80 (3%)
Query: 12 EAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNE 71
EA + + S D + + + + + + +R + A+ +K
Sbjct: 929 EAFDGECQSLEGQSNSDLLSILAQLTELNYNGVPELTERKDTFFAQQWTG---VKSSAET 985
Query: 72 TSKELKVLKEKMEAQVELER 91
L E+++ +L
Sbjct: 986 YKNTLLAELERLQKIEDLHH 1005
>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 = 28.3 bits (62), Expect = 0.34
Identities = 13/82 (15%), Positives = 26/82 (31%), Gaps = 16/82 (19%)
Query: 2 ISVCCEESIQEA---EVSKRRRDWA-FSERDKIVLERESIRTLCDKLRKERDRAVSDLAE 57
+ VC +Q ++ W + E ++ L ++ +
Sbjct: 168 LDVCLSYKVQCKMDFKIF-----WLNLKNCNSPETVLEMLQKLLYQIDP-------NWTS 215
Query: 58 ALRDSDNIKKQKNETSKELKVL 79
S NIK + + EL+ L
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRL 237
Score = 26.4 bits (57), Expect = 1.7
Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 9/83 (10%)
Query: 7 EESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDS---- 62
++ + +SK D +D + TL K + + V + LR +
Sbjct: 39 QDMPKSI-LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE---VLRINYKFL 94
Query: 63 -DNIKKQKNETSKELKVLKEKME 84
IK ++ + S ++ E+ +
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRD 117
>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase;
1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A
Length = 370
Score = 27.8 bits (62), Expect = 0.47
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 46 KERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVELER 91
KE D+A++DL +A I + EL +K+K++AQ + E+
Sbjct: 321 KEYDQALADLKKAQ----EIAPEDKAIQAELLKVKQKIKAQKDKEK 362
>1omo_A Alanine dehydrogenase; two-domain, beta-sandwich-dimer,
rossmann-fold NAD domain, human MU crystallin homolog;
HET: NAD; 2.32A {Archaeoglobus fulgidus} SCOP: c.2.1.13
PDB: 1vll_A
Length = 322
Score = 26.8 bits (60), Expect = 0.97
Identities = 4/30 (13%), Positives = 7/30 (23%)
Query: 34 RESIRTLCDKLRKERDRAVSDLAEALRDSD 63
++ + A AE D
Sbjct: 160 EKAAKKFVSYCEDRGISASVQPAEEASRCD 189
>2i99_A MU-crystallin homolog; thyroid hormine binding protein,
oxidoreductase; HET: NDP; 2.60A {Homo sapiens}
Length = 312
Score = 26.9 bits (60), Expect = 1.0
Identities = 8/30 (26%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 34 RESIRTLCDKLRKERDRAVSDLAEALRDSD 63
+E+ D ++ E R S + EA+ +D
Sbjct: 170 KENAEKFADTVQGE-VRVCSSVQEAVAGAD 198
>1x0v_A GPD-C, GPDH-C, glycerol-3-phosphate dehydrogenase [NAD+],
cytoplasmic; two independent domains, GXGXXG motif,
oxidoreductase; 2.30A {Homo sapiens} PDB: 1x0x_A*
1wpq_A* 2pla_A*
Length = 354
Score = 26.4 bits (59), Expect = 1.2
Identities = 13/56 (23%), Positives = 18/56 (32%), Gaps = 17/56 (30%)
Query: 22 WAFSERDKIVLERESIRT------------LCDKLRKERDRAVSDLAEALRDSDNI 65
W F E E I T L + AV D+ +A D+D +
Sbjct: 44 WVFEEDIGGKKLTEIINTQHENVKYLPGHKLPPNVV-----AVPDVVQAAEDADIL 94
>2kho_A Heat shock protein 70; molecular chaperone, HSP70, peptide binding,
protein folding, acetylation, ATP-binding, cell inner
membrane; NMR {Escherichia coli}
Length = 605
Score = 26.4 bits (59), Expect = 1.4
Identities = 16/89 (17%), Positives = 37/89 (41%), Gaps = 9/89 (10%)
Query: 7 EESIQEAEVSKRRRDW--AFSERDKIVLERE-SIRTLCDKL----RKERDRAVSDLAEAL 59
++ AE ++ + ++ D ++ + DKL + + A++ L AL
Sbjct: 517 RDAEANAEADRKFDELVQTRNQGDHLLHSTRKQVEEAGDKLPADDKTAIESALTALETAL 576
Query: 60 R--DSDNIKKQKNETSKELKVLKEKMEAQ 86
+ D I+ + E ++ + L E + Q
Sbjct: 577 KGEDKAAIEAKMQELAQVSQKLMEIAQQQ 605
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 26.4 bits (59), Expect = 1.4
Identities = 15/83 (18%), Positives = 36/83 (43%), Gaps = 7/83 (8%)
Query: 17 KRRRDWAFSERDKIV---LERESIRTLCDKLRKERDRAVSDLAEALR---DSDNIKKQKN 70
KR D+I+ E + ++LR ER++ ++ + + D + +
Sbjct: 20 KRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNKIAVEIGKRRKKGEPVDELLAKSR 79
Query: 71 ETSKELKVLKEKM-EAQVELERY 92
E K + L+ ++ E + +++ Y
Sbjct: 80 EIVKRIGELENEVEELKKKIDYY 102
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 26.2 bits (58), Expect = 1.6
Identities = 13/87 (14%), Positives = 34/87 (39%), Gaps = 4/87 (4%)
Query: 8 ESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALR---DSDN 64
E+ V+ + + + R+K+ S + ++ A + + + +
Sbjct: 118 ENFIPTIVNFSAEEISDAIREKMKKNYMSNPSYNYEIVNRASLAAGPMVKWAIAQLNYAD 177
Query: 65 IKKQKNETSKELKVLKEKM-EAQVELE 90
+ K+ EL+ L++ + Q +LE
Sbjct: 178 MLKRVEPLRNELQKLEDDAKDNQQKLE 204
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 3.00A {Escherichia
coli}
Length = 716
Score = 26.0 bits (58), Expect = 1.9
Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 7/51 (13%)
Query: 32 LERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEK 82
LE IR +L KERD L L +K N KEL+ +
Sbjct: 402 LEEMKIRGEQSELEKERD----QLQGILASE---RKMNNLLKKELQADAQA 445
>1yj8_A Glycerol-3-phosphate dehydrogenase; SGPP, structural genomics, PSI;
2.85A {Plasmodium falciparum}
Length = 375
Score = 25.7 bits (57), Expect = 2.1
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 50 RAVSDLAEALRDSDNI 65
A SDLA + D+D +
Sbjct: 92 VAHSDLASVINDADLL 107
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.9 bits (56), Expect = 2.1
Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 25 SERDKIVLERESIRTLCDKLRKERDRAVS--DLAEALRDSDNIKKQKNETSKELKVLKEK 82
++ D++ E ESIR K R+E+ + + D A + + + +K K + + + E+
Sbjct: 75 AQADRLTQEPESIR----KWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ 130
Query: 83 MEAQVELER 91
+E R
Sbjct: 131 VEKNKINNR 139
>1x7d_A Ornithine cyclodeaminase; binds NAD+, binds L-ornithine, binds
L-proline, 2 bundle, beta barrel, rossmann fold, lyase;
HET: NAD ORN MES; 1.60A {Pseudomonas putida} SCOP:
c.2.1.13 PDB: 1u7h_A*
Length = 350
Score = 25.8 bits (57), Expect = 2.3
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 34 RESIRTLCDKLRKERD---RAVSDLAEALRDSD 63
+ L L++ R S +AEA++ D
Sbjct: 164 PLATAKLIANLKEYSGLTIRRASSVAEAVKGVD 196
>1bg6_A N-(1-D-carboxylethyl)-L-norvaline dehydrogenase; L)
stereospecific opine dehydrogenase, oxidoreductase;
1.80A {Arthrobacter SP} SCOP: a.100.1.5 c.2.1.6
Length = 359
Score = 25.8 bits (56), Expect = 2.5
Identities = 10/47 (21%), Positives = 16/47 (34%), Gaps = 3/47 (6%)
Query: 22 WAFSER--DKIVLERESIRTLCD-KLRKERDRAVSDLAEALRDSDNI 65
W + +I I D SD+ A++D+D I
Sbjct: 33 WDIDAQRIKEIQDRGAIIAEGPGLAGTAHPDLLTSDIGLAVKDADVI 79
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 25.4 bits (56), Expect = 2.7
Identities = 7/41 (17%), Positives = 19/41 (46%)
Query: 8 ESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKER 48
+ ++ R + +E +++ E + I K++K+R
Sbjct: 225 PRGSRYDEAEGRFEVINNETEQLKAEEKKILNQFLKIKKKR 265
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 25.6 bits (56), Expect = 2.8
Identities = 16/89 (17%), Positives = 37/89 (41%), Gaps = 10/89 (11%)
Query: 7 EESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRD----- 61
+ I E + +++ E + E + + K+ S +++ D
Sbjct: 1080 QAQIAELKAQLAKKE---EELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEK 1136
Query: 62 --SDNIKKQKNETSKELKVLKEKMEAQVE 88
+ +KQK + S+EL+ LK ++E ++
Sbjct: 1137 AARNKAEKQKRDLSEELEALKTELEDTLD 1165
Score = 24.4 bits (53), Expect = 8.1
Identities = 19/78 (24%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 7 EESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIK 66
EE Q+ + K++ + ++ + E E+ R KL+ E+ A + + D ++
Sbjct: 940 EERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQ---KLQLEKVTADGKIKKMEDDILIME 996
Query: 67 KQKNETSKELKVLKEKME 84
Q N+ +KE K+L+E++
Sbjct: 997 DQNNKLTKERKLLEERVS 1014
>3k96_A Glycerol-3-phosphate dehydrogenase [NAD(P)+]; GPSA, IDP01976,
oxidoreductase, phospholipid biosynthesis; HET: EPE;
2.10A {Coxiella burnetii}
Length = 356
Score = 25.2 bits (56), Expect = 3.2
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 50 RAVSDLAEALRDSDNI 65
+A DL +L +I
Sbjct: 88 KAYCDLKASLEGVTDI 103
>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum,
structural proteomics, heat-like repeat; NMR
{Methanothermobacterthermautotrophicus} SCOP:
a.118.1.16
Length = 131
Score = 25.0 bits (55), Expect = 3.5
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 44 LRKERDRAVSDLAEALRDSD 63
L + D A L E+L + D
Sbjct: 36 LSRMGDEAFEPLLESLSNED 55
>1evy_A Glycerol-3-phosphate dehydrogenase; rossmann fold,
oxidoreductase; HET: MYS; 1.75A {Leishmania mexicana}
SCOP: a.100.1.6 c.2.1.6 PDB: 1evz_A* 1jdj_A* 1m66_A*
1m67_A* 1n1e_A* 1n1g_A*
Length = 366
Score = 25.2 bits (56), Expect = 3.7
Identities = 4/16 (25%), Positives = 8/16 (50%)
Query: 50 RAVSDLAEALRDSDNI 65
SD+ +A ++ I
Sbjct: 74 TFTSDVEKAYNGAEII 89
>3p8q_A GP5, head protein; virus procapsid particles, virus; 5.20A
{Enterobacteria phage HK97} PDB: 3qpr_A
Length = 385
Score = 24.8 bits (53), Expect = 4.9
Identities = 5/47 (10%), Positives = 19/47 (40%)
Query: 42 DKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVE 88
++K + + + + + + SK+L+ K++ ++
Sbjct: 5 ALIQKAIEESQQKMTQLFDAQKAEIESTGQVSKQLQSDLMKVQEELT 51
>1txg_A Glycerol-3-phosphate dehydrogenase [NAD(P)+]; oxidoreductase;
1.70A {Archaeoglobus fulgidus} SCOP: a.100.1.6 c.2.1.6
Length = 335
Score = 24.8 bits (55), Expect = 5.3
Identities = 2/16 (12%), Positives = 7/16 (43%)
Query: 50 RAVSDLAEALRDSDNI 65
L + L +++ +
Sbjct: 60 FWPEQLEKCLENAEVV 75
>3kdq_A Uncharacterized conserved protein; functionally unknown
protein,corynebacterium diphtheriae, structural
genomics, PSI-2; 3.00A {Corynebacterium diphtheriae}
Length = 154
Score = 24.5 bits (53), Expect = 5.5
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 23 AFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALR--DSDNIKKQKNETSKELKVLK 80
A S RD ++ +R L D+L +DR + + D+ I+K+ + +KE + L
Sbjct: 82 ALSVRDALLKKRTLYSDLADQLTSRQDRYSRSEIKYVATMDAREIRKKADLAAKEYRQLD 141
Query: 81 EKMEA---QVELE 90
++ Q EL+
Sbjct: 142 VDIQRLNWQTELQ 154
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, serrs, translation, ATP-binding,
nucleotide-binding, structural genomics; HET: ATP;
1.95A {Trypanosoma brucei} PDB: 3lsq_A*
Length = 484
Score = 24.6 bits (54), Expect = 6.1
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 57 EALRDSDNIKKQKNETSKELKVLKEKMEAQVE 88
++ KK N SK + K+ EA +
Sbjct: 48 RTQFLTEASKKLINICSKAVGAKKKAKEADGD 79
>1a3a_A Mannitol-specific EII; phosphoenolpyruvate dependent
phosphotransferase system, IIA histidine
phosphorylation, phosphotransferase; 1.80A {Escherichia
coli} SCOP: d.112.1.1 PDB: 1j6t_A 2few_A*
Length = 148
Score = 24.1 bits (53), Expect = 7.5
Identities = 9/35 (25%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 50 RAVSDLAEALRDSDNIKKQKNETSKE--LKVLKEK 82
+ ++ L AL D I++ + TS + L++L +
Sbjct: 113 QVITSLTNALDDESVIERLAHTTSVDEVLELLAGR 147
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 24.3 bits (53), Expect = 7.8
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 57 EALRDSDNIKKQKNETSKELKVLKEKME 84
+DN+ K KN SK + +K E
Sbjct: 45 RCRFRADNLNKLKNLCSKTIGEKMKKKE 72
>4e81_A Chaperone protein DNAK; chaperone; 1.90A {Escherichia coli} PDB:
3dpp_A* 3dpq_A* 3qnj_A 3dpo_A 1dkz_A 1dky_A 1dkx_A
1bpr_A 2bpr_A 1dg4_A
Length = 219
Score = 24.1 bits (53), Expect = 8.3
Identities = 14/59 (23%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 34 RESIRTLCDKL----RKERDRAVSDLAEALR--DSDNIKKQKNETSKELKVLKEKMEAQ 86
R+ + DKL + + A++ L AL+ D I+ + E ++ + L E + Q
Sbjct: 159 RKQVEEAGDKLPADDKTAIESALTALETALKGEDKAAIEAKMQELAQVSQKLMEIAQQQ 217
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
0.312 0.126 0.334
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,314,743
Number of extensions: 64942
Number of successful extensions: 255
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 101
Length of query: 93
Length of database: 6,701,793
Length adjustment: 60
Effective length of query: 33
Effective length of database: 5,026,533
Effective search space: 165875589
Effective search space used: 165875589
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: 51 (23.4 bits)