RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2025
(213 letters)
>1fl0_A Endothelial-monocyte activating polypeptide II; RNA-binding domain,
OB-fold, tRNA synthetase complex, RNA binding protein;
1.50A {Homo sapiens} SCOP: b.40.4.4 PDB: 1e7z_A 1euj_A
Length = 171
Score = 136 bits (345), Expect = 3e-41
Identities = 51/147 (34%), Positives = 80/147 (54%), Gaps = 6/147 (4%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
+ +GE R +VSGL N++ Q+ N V+++CNLKPAK RG+LSQ M++CAS
Sbjct: 27 VEEVDVGEIAPRTVVSGLVNHVPLEQMQNRMVILLCNLKPAKMRGVLSQAMVMCAS---- 82
Query: 107 NVTRVEVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKGH 166
+ ++E++ PP G R+ G PDK L+PK+ +W +IQ DL ++D +KG
Sbjct: 83 SPEKIEILAPPNGSVPGDRITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGV 142
Query: 167 RLETVNAQRAAVDLKSDDNGHIRWKGH 193
E ++ N I+ + H
Sbjct: 143 PFEVKGK--GVCRAQTMSNSGIKLEHH 167
>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo
sapiens} SCOP: b.40.4.4
Length = 172
Score = 136 bits (343), Expect = 7e-41
Identities = 48/125 (38%), Positives = 70/125 (56%), Gaps = 2/125 (1%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
++ +GE + R +VSGL ++ +L + VVV+CNLKP K RG+ SQGM+LCAS
Sbjct: 31 VEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNLKPQKMRGVESQGMLLCAS-IEG 89
Query: 107 NVTRVEVVRPPENCTAGQRVFIHNRT-GIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKG 165
+VE + PP G+ VF+ G PD+ L PK+ V+ K+Q D K + +WK
Sbjct: 90 INRQVEPLDPPAGSAPGEHVFVKGYEKGQPDEELKPKKKVFEKLQADFKISEECIAQWKQ 149
Query: 166 HRLET 170
T
Sbjct: 150 TNFMT 154
>1pxf_A Hypothetical protein YGJH; oligonucleotide-oligosaccharide binding
fold, OB fold, beta- barrel; 1.87A {Escherichia coli}
SCOP: b.40.4.4 PDB: 3ers_X
Length = 111
Score = 88.5 bits (220), Expect = 5e-23
Identities = 25/80 (31%), Positives = 43/80 (53%), Gaps = 3/80 (3%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
+++ +G+ V+ L Y + +L +VVV+CNL+ AK RG S+ M+LCA +
Sbjct: 33 IVQVDVGQKT-LQTVTSLVPYYSEEELMGKTVVVLCNLQKAKMRGETSECMLLCAET--D 89
Query: 107 NVTRVEVVRPPENCTAGQRV 126
+ + ++ P AG RV
Sbjct: 90 DGSESVLLTPERMMPAGVRV 109
>1mkh_A Metrs;, C-terminal domain of methionyl-tRNA synthetase; beta
barrel, dimerization domain, ligase; 2.01A {Pyrococcus
abyssi} SCOP: b.40.4.4
Length = 107
Score = 84.2 bits (209), Expect = 1e-21
Identities = 30/80 (37%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
+++ +G+ R +V+GL Y +L N VVVV NL+P K RGI SQGM+L A
Sbjct: 32 VVKVDLGDEV-RTLVAGLKKYYKPEELLNRYVVVVANLEPKKLRGIGSQGMLLAAD---- 86
Query: 107 NVTRVEVVRPPENCTAGQRV 126
+ RV ++ P + G +V
Sbjct: 87 DGERVALLMPDKEVKLGAKV 106
>2cwp_A Metrs related protein; structural GEN riken structural
genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus
horikoshii}
Length = 112
Score = 80.3 bits (199), Expect = 5e-20
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 4/81 (4%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
KL + G + R IV+G+A+ + +L + V NLKP KF G+ SQGM++ A
Sbjct: 36 KLIVDFGNEE-RTIVTGIADQIPPEELEGKKFIFVVNLKPKKFSGVESQGMLILAE---T 91
Query: 107 NVTRVEVVRPPENCTAGQRVF 127
+V ++ PE G RV+
Sbjct: 92 EDGKVYLIPVPEEVPVGARVW 112
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A
{Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1
Length = 722
Score = 85.9 bits (213), Expect = 8e-20
Identities = 30/88 (34%), Positives = 46/88 (52%), Gaps = 5/88 (5%)
Query: 39 IERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMI 98
+ +++ +G+ R +V+GL Y +L N VVVV NL+P K RGI SQGM+
Sbjct: 639 HPNADKLYVVKVDLGDEV-RTLVAGLKKYYKPEELLNRYVVVVANLEPKKLRGIGSQGML 697
Query: 99 LCASETYNNVTRVEVVRPPENCTAGQRV 126
L A + RV ++ P + G +V
Sbjct: 698 LAADDG----ERVALLMPDKEVKLGAKV 721
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide,
oligosaccharide-binding fold, OB-fold, beta-barrel, RNA
binding protein; 2.50A {Aquifex aeolicus} SCOP: b.40.4.4
Length = 111
Score = 79.9 bits (198), Expect = 9e-20
Identities = 31/80 (38%), Positives = 46/80 (57%), Gaps = 5/80 (6%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
KL L +G+ + R +V+G+A Y T +L +V+V NLKP K GI SQGMIL AS
Sbjct: 36 KLTLSLGDEE-RTVVAGIAKYYTPEELVGKKIVIVANLKPRKIFGIESQGMILAAS---- 90
Query: 107 NVTRVEVVRPPENCTAGQRV 126
+ + V+ P + G ++
Sbjct: 91 DGENLSVIVPDRDVKEGAKL 110
>1gd7_A CSAA protein; oligonucleotide-binding fold, functional dimer,
hydrophobic cavity, riken structural genomics/proteomics
initiative, RSGI; 2.00A {Thermus thermophilus} SCOP:
b.40.4.4
Length = 109
Score = 68.3 bits (168), Expect = 2e-15
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 3/81 (3%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
KL + +G + + + L VV NL + G LS+ ++L +
Sbjct: 32 KLWVDLGPLGVKQSSAQITELYRPEDLVGRLVVCAVNLGAKRVAGFLSEVLVLGVPDEAG 91
Query: 107 NVTRVEVVRPPENCTAGQRVF 127
V ++ P G +VF
Sbjct: 92 RVV---LLAPDREVPLGGKVF 109
>3g48_A Chaperone CSAA; structural genomics, niaid structural centers for
infectious diseases, center for structural GENO
infectious diseases; 1.50A {Bacillus anthracis}
Length = 112
Score = 66.0 bits (162), Expect = 2e-14
Identities = 14/80 (17%), Positives = 30/80 (37%), Gaps = 3/80 (3%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
+L + GE + + + L +V V N P + G S+ ++L
Sbjct: 35 RLEIDFGELGMKQSSAQITKRYNPEDLIGQQIVAVVNFPPKRVAGFKSEVLVLGGVPEAG 94
Query: 107 NVTRVEVVRPPENCTAGQRV 126
+V +++P G ++
Sbjct: 95 DVV---LLQPNMELPNGTKI 111
>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptid;
beta barrel, OB fold, homodimer, protein secretio; HET:
CIT; 1.65A {Agrobacterium tumefaciens str}
Length = 131
Score = 62.7 bits (153), Expect = 4e-13
Identities = 11/81 (13%), Positives = 30/81 (37%), Gaps = 4/81 (4%)
Query: 47 KLRLQIGEGQD-RLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETY 105
K+++ G + + + + T L V+ V N P + S+ + L ++
Sbjct: 53 KVKIDFGPEIGIKKSSAQITVHYTPESLVGRQVLGVVNFPPRQIGPFRSEVLTLGFADAN 112
Query: 106 NNVTRVEVVRPPENCTAGQRV 126
++ + G+++
Sbjct: 113 GDIV---LAAVERPVPNGEKM 130
>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer,
protein secretio; 1.55A {Agrobacterium tumefaciens str}
Length = 116
Score = 62.2 bits (152), Expect = 5e-13
Identities = 13/89 (14%), Positives = 34/89 (38%), Gaps = 9/89 (10%)
Query: 44 EEAK---LRLQI---GEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGM 97
EA+ ++++I E + + + + T L V+ V N P + S+ +
Sbjct: 30 PEARKPAIKVKIDFGPEIGIKKSSAQITVHYTPESLVGRQVLGVVNFPPRQIGPFRSEVL 89
Query: 98 ILCASETYNNVTRVEVVRPPENCTAGQRV 126
L ++ ++ + G+++
Sbjct: 90 TLGFADANGDIV---LAAVERPVPNGEKM 115
>2nzh_A Protein CSAA; beta barrel, oligonucleotide/oligosaccharide binding
fold, H chaperone; 1.90A {Bacillus subtilis} PDB: 2nzo_A
Length = 113
Score = 60.2 bits (147), Expect = 3e-12
Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 4/81 (4%)
Query: 47 KLRLQIGEGQD-RLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETY 105
KL + G + + + L N V+ V N P + G S+ ++L
Sbjct: 35 KLVIDFGTEIGIKQSSAQITKRYKPEGLINKQVIAVVNFPPRRIAGFKSEVLVLGGIPGQ 94
Query: 106 NNVTRVEVVRPPENCTAGQRV 126
+V +++P + G ++
Sbjct: 95 GDVV---LLQPDQPVPNGTKI 112
>2e8g_A Hypothetical protein PH0536;
oligonucleotide/oligosaccharide-binding fold,
alpha-helices bundle, structural genomics, NPPSFA; 1.70A
{Pyrococcus horikoshii}
Length = 241
Score = 51.9 bits (124), Expect = 2e-08
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 8/59 (13%)
Query: 47 KLRL-QIGEGQDRL-IVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASE 103
+L + + G+ + +V+ + V V L P F GI+S+GM L A E
Sbjct: 154 RLLVTNVNIGERAVTVVTNDLTVKEG------NRVAVALLPPRNFFGIVSEGMFLGAGE 206
>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 = 32.1 bits (74), Expect = 0.12
Identities = 10/18 (55%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 84 LKPAKFRGILSQGMILCA 101
+K AK RG S+GMI C+
Sbjct: 101 IKRAKLRGERSEGMI-CS 117
>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 = 32.1 bits (74), Expect = 0.14
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 84 LKPAKFRGILSQGMILCASE 103
+ +G+ S GM L E
Sbjct: 103 VGERVIQGVRSFGMALSPRE 122
>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 = 31.7 bits (73), Expect = 0.20
Identities = 9/18 (50%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 84 LKPAKFRGILSQGMILCA 101
+K AK RG S+GM+ C+
Sbjct: 105 IKAAKLRGEPSEGML-CS 121
>3bu2_A Putative tRNA-binding protein; structural genomics, PSI-2, protein
structure initiative; 2.70A {Staphylococcus
saprophyticus subsp}
Length = 199
Score = 30.8 bits (70), Expect = 0.25
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 84 LKPAKFRGILSQGMILCASE 103
+K A+ RG+ S GMI E
Sbjct: 152 IKDAELRGVASSGMICSMKE 171
>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 = 31.2 bits (70), Expect = 0.32
Identities = 29/156 (18%), Positives = 44/156 (28%), Gaps = 64/156 (41%)
Query: 91 GILSQGMILCASETYNN--VTR------------------VEVVR--PPENCTAGQRVFI 128
G QGM + Y + +++V P + I
Sbjct: 1625 GSQEQGM---GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVN-------LTI 1674
Query: 129 HNRTGIPDKMLHPK--EMVW----------PKIQVDLKSDDNGHIRWKGHR--L-ETVNA 173
H G K + M++ KI ++ + ++ + L T
Sbjct: 1675 HF-GGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT-FRSEKGLLSATQFT 1732
Query: 174 QRA------AV--DLKSDDNGHIRWK----GHRL-E 196
Q A A DLKS G I GH L E
Sbjct: 1733 QPALTLMEKAAFEDLKS--KGLIPADATFAGHSLGE 1766
Score = 30.8 bits (69), Expect = 0.38
Identities = 27/154 (17%), Positives = 41/154 (26%), Gaps = 54/154 (35%)
Query: 55 GQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVV 114
G L+VSG + L L+ AK L Q I SE
Sbjct: 373 GAKNLVVSGPPQSLYGLNL---------TLRKAKAPSGLDQSRIP-FSE----------- 411
Query: 115 RPPENCTAGQRVFIHNR---TGIP--DKMLHPKEMVWPKIQVDLKSDDNGHIRWKGHRLE 169
R + NR P +L P I DL ++ + + ++
Sbjct: 412 RKLK---------FSNRFLPVASPFHSHLLVP---ASDLINKDLVKNN---VSFNAKDIQ 456
Query: 170 -TVNAQRAAVDLKSDDNG------------HIRW 190
V DL+ ++W
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
>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 = 29.5 bits (65), Expect = 0.42
Identities = 6/18 (33%), Positives = 10/18 (55%), Gaps = 3/18 (16%)
Query: 194 RLETVNGPLKVYMLHNAP 211
+L+ LK+Y +AP
Sbjct: 24 KLQ---ASLKLYADDSAP 38
>2ve5_A BADH, betaine aldehyde dehydrogenase; aldehyde oxidation, NAD, NADP
complex, oxidoreductase; HET: NAP CSO; 2.10A
{Pseudomonas aeruginosa} PDB: 2wme_A* 2wox_A* 3zqa_A*
2xdr_A*
Length = 490
Score = 27.1 bits (61), Expect = 5.3
Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
+ CT G RVFIH +
Sbjct: 284 QVCTNGTRVFIHR--SQQARFE 303
>1sqw_A Saccharomyces cerevisiae NIP7P homolog; PUA, unknown function;
1.90A {Homo sapiens} SCOP: b.122.1.1 d.17.6.3 PDB:
1t5y_A
Length = 188
Score = 26.4 bits (58), Expect = 6.2
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 106 NNVTRVEVVRPPENCTAGQRVFIHNRTGIP 135
N+V + + R EN + Q V +++ IP
Sbjct: 111 NHVLKSGLGRITENTSQYQGVVVYSMADIP 140
>1a4s_A ALDH, betaine aldehyde dehydrogenase; oxidoreductase, aldehyde
oxidation; 2.10A {Gadus callarias} SCOP: c.82.1.1 PDB:
1bpw_A*
Length = 503
Score = 26.7 bits (60), Expect = 6.4
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
+ CT G RVF+ I + L
Sbjct: 295 QVCTNGTRVFVQR--EIMPQFL 314
>3r31_A BADH, betaine aldehyde dehydrogenase; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 2.15A {Agrobacterium tumefaciens}
Length = 517
Score = 26.8 bits (60), Expect = 7.3
Identities = 6/22 (27%), Positives = 10/22 (45%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
+ C+ G RVF+ + L
Sbjct: 290 QVCSNGTRVFVQK--KAKARFL 309
>1o04_A Aldehyde dehydrogenase, mitochondrial precursor; ALDH, NAD, NADH,
isomerization, oxidoreductase; HET: NAD; 1.42A {Homo
sapiens} SCOP: c.82.1.1 PDB: 1nzw_A* 3inl_A* 3n80_A*
1nzz_A* 1o00_A* 1nzx_A* 1o01_A* 1o05_A 1of7_A* 1o02_A*
3inj_A* 3sz9_A* 1zum_A 2onm_A* 2onp_A* 2onn_A 2ono_A*
3n81_A 3n82_A* 3n83_A* ...
Length = 500
Score = 26.4 bits (59), Expect = 7.9
Identities = 6/22 (27%), Positives = 10/22 (45%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
+ AG R F+ I D+ +
Sbjct: 300 QCSCAGSRTFVQE--DIYDEFV 319
>2ezk_A Transposase; DNA-binding protein, transposition, transposable
element; NMR {Enterobacteria phage MU} SCOP: a.4.1.2
PDB: 2ezl_A
Length = 99
Score = 25.4 bits (55), Expect = 8.0
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 40 ERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQL 73
+ Q+ A+ L + D ++ G+ + TAF
Sbjct: 26 DSQRRLAEKWLPAVQAADEMLNQGI-STKTAFAT 58
>2o2p_A Formyltetrahydrofolate dehydrogenase; aldehyde dehydrogenase, FDH,
oxidoreductase; 1.70A {Rattus norvegicus} PDB: 2o2q_A*
2o2r_A* 3rho_A* 3rhm_A* 3rhj_A* 3rhq_A* 3rhp_A* 3rhr_A*
3rhl_A*
Length = 517
Score = 26.4 bits (59), Expect = 8.8
Identities = 7/22 (31%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
ENC A R+F+ I ++ +
Sbjct: 320 ENCIAAGRLFVEE--SIHNQFV 339
>1bxs_A Aldehyde dehydrogenase; retinal, class 1, tetramer, NAD, cytosolic,
oxidoreductase; HET: NAD; 2.35A {Ovis aries} SCOP:
c.82.1.1 PDB: 1o9j_A* 1bi9_A*
Length = 501
Score = 26.4 bits (59), Expect = 9.2
Identities = 6/22 (27%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
+ C A R+F+ I D+ +
Sbjct: 301 QCCIAASRLFVEE--SIYDEFV 320
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 0.431
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,276,253
Number of extensions: 187734
Number of successful extensions: 443
Number of sequences better than 10.0: 1
Number of HSP's gapped: 440
Number of HSP's successfully gapped: 31
Length of query: 213
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 123
Effective length of database: 4,188,903
Effective search space: 515235069
Effective search space used: 515235069
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 (24.8 bits)