RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16754
(127 letters)
>2kd2_A FAS apoptotic inhibitory molecule 1; protein, beta sandwich,
apoptosis; NMR {Mus musculus} PDB: 2kw1_A
Length = 94
Score = 102 bits (256), Expect = 5e-30
Identities = 38/77 (49%), Positives = 60/77 (77%)
Query: 45 SQSKANCTWIVTVEDETYRVVLERGTLDIWVNGDRVDVTGEFVENGTETHFTIGDTPAYI 104
++SK TW++ ++ E RVVLE+ T+D+W NG +++ GEFV++GTETHF++G+ YI
Sbjct: 7 NRSKTTSTWVLRLDGEDLRVVLEKDTMDVWCNGQKMETAGEFVDDGTETHFSVGNHDCYI 66
Query: 105 KAVSSCNKKEGLLYSLI 121
KAVSS +KEG++++LI
Sbjct: 67 KAVSSGKRKEGIIHTLI 83
>3mx7_A FAS apoptotic inhibitory molecule 1; beta sheet, apoptosis; 1.76A
{Homo sapiens}
Length = 90
Score = 59.1 bits (143), Expect = 5e-13
Identities = 17/45 (37%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 1 MFRLVGEESFQLD-SKVPCLIKIEPSGPFGYAYSITVDGKTLEKF 44
MF+LVG+E+F + +K I I+ F Y Y++ ++GK+L+K+
Sbjct: 45 MFKLVGKETFYVGAAKTKATINIDAISGFAYEYTLEINGKSLKKY 89
Score = 26.0 bits (57), Expect = 2.0
Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 8/73 (10%)
Query: 52 TWIVTVEDETYRVVLERGTLD----IWVNGDRVDVTG-EFVENGTETHFTIGDTPAYIKA 106
W V + D +++ E GT ++V+G F G ET F +G A KA
Sbjct: 7 VWDVALSDGVHKIEFEHGTTSGKRVVYVDGKEEIRKEWMFKLVGKET-FYVG--AAKTKA 63
Query: 107 VSSCNKKEGLLYS 119
+ + G Y
Sbjct: 64 TINIDAISGFAYE 76
>3ls9_A Triazine hydrolase; atrazine chlorohydrolase TRZN; 1.40A
{Arthrobacter aurescens} PDB: 3lsc_A* 3lsb_A*
Length = 456
Score = 30.3 bits (69), Expect = 0.14
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 50 NCTWIVTVEDETYRVVLERGTLDIWVNGDRV 80
T ++T +D+ LE DI ++G ++
Sbjct: 6 GLTRVITFDDQ--ERELEDA--DILIDGPKI 32
>3h4u_A Amidohydrolase; signature of Zn ligands, structural genomics,
NYSGXRC, target 9236E, PSI-2, protein structure
initiative; 2.20A {Unidentified} PDB: 3hpa_A
Length = 479
Score = 29.9 bits (68), Expect = 0.18
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 50 NCTWIVTVEDETYRVVLERGTLDIWVNGDR---VDVTGEFVENGTET 93
+ +VT++D R L +++ +R V + E E E
Sbjct: 35 HADVLVTMDDT--RRELRDA--GLYIEDNRIVAVGPSAELPETADEV 77
>1y3t_A Hypothetical protein YXAG; BI cupin, dioxygenase, oxidoreductase;
2.40A {Bacillus subtilis} SCOP: b.82.1.5 PDB: 2h0v_A*
Length = 337
Score = 28.2 bits (62), Expect = 0.76
Identities = 7/33 (21%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 56 TVEDETYRVVLERGTLDIWVNGDRVDVT-GEFV 87
E V+ G L++ ++G+R + G++
Sbjct: 65 KDTHEGILVL--DGKLELTLDGERYLLISGDYA 95
>2pxx_A Uncharacterized protein MGC2408; structural genomics consortium,
SGC, methyltransferase, LOC84291, transferase; HET: SAH;
1.30A {Homo sapiens}
Length = 215
Score = 27.3 bits (60), Expect = 1.1
Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 8/60 (13%)
Query: 58 EDETYRVVLERGTLDIWVNGDRVDVTGEFVENGTETHFTIGDTPAYIKAVSSCNKKEGLL 117
++ VVLE+GTLD + G+R + T + + + VS G
Sbjct: 104 PSASFDVVLEKGTLDALLAGER--------DPWTVSSEGVHTVDQVLSEVSRVLVPGGRF 155
>2p0y_A Hypothetical protein LP_0780; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; 3.00A {Lactobacillus plantarum}
Length = 341
Score = 27.2 bits (60), Expect = 1.4
Identities = 12/69 (17%), Positives = 25/69 (36%), Gaps = 6/69 (8%)
Query: 38 GKTLEKFSQSKANCTWIVTVEDETYRVVLERGTLDIWVNGDRVDV------TGEFVENGT 91
L + + T +VTV D+ + R +++ GD +V + ++
Sbjct: 23 PVVLNGLRKQAVDITAVVTVADDGGSSGIIRNYVNVVPPGDIRNVMVALSSWPDLYKDIF 82
Query: 92 ETHFTIGDT 100
+ F D
Sbjct: 83 QYRFQGDDQ 91
>1zp7_A Recombination protein U; recombination,DNA-binding
protein,resolvase, DNA binding protein; 2.25A {Bacillus
subtilis} PDB: 1rzn_A
Length = 206
Score = 27.1 bits (60), Expect = 1.6
Identities = 11/74 (14%), Positives = 23/74 (31%), Gaps = 11/74 (14%)
Query: 41 LEKFSQSKANCTWIVTVEDETYRVVLERGTLDIWVNGDRVDVTG-------EFVENGTET 93
+++ C I++ D+ Y + + ++ DR + G E E
Sbjct: 124 MKQVKAQDGICFVIISAFDQVYFLEAD----KLFYFWDRKEKNGRKSIRKDELEETAYPI 179
Query: 94 HFTIGDTPAYIKAV 107
YI +
Sbjct: 180 SLGYAPRIDYISII 193
>2c3f_A HYLP1, hyaluronidase, phage associated; lyase, hyaluronan lyase,
phage tail fibre, triple-stranded beta- helix, scarlet
fever; 1.81A {Streptococcus pyogenes} SCOP: b.108.1.5
PDB: 2yvv_A* 2yw0_A 2yx2_A 2pk1_A* 3eka_A* 2dp5_A
Length = 358
Score = 26.9 bits (58), Expect = 2.0
Identities = 9/45 (20%), Positives = 15/45 (33%)
Query: 55 VTVEDETYRVVLERGTLDIWVNGDRVDVTGEFVENGTETHFTIGD 99
++ E+ RV +R W D + + E GD
Sbjct: 21 MSSENIPLRVQFKRMKAAEWARSDVILLESEIGFETDTGFARAGD 65
>1j1t_A Alginate lyase; guluronate, mannuronate; 2.00A {Alteromonas SP}
SCOP: b.29.1.18
Length = 233
Score = 26.4 bits (57), Expect = 2.5
Identities = 9/39 (23%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 61 TYRVVLERGTLDIWVNGDRVDVTGEFVENGTETHFTIGD 99
RVV G +++ G+ + VE+ ++++F G+
Sbjct: 150 NLRVVNNYGDVEVTAFGNSFGI---PVEDDSQSYFKFGN 185
>2zxe_A Na, K-ATPase alpha subunit; membrane protein, ION pump, ATPase, K+
binding, haloacid dehydrogenease superfamily, phosphate
analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias}
PDB: 3a3y_A* 3b8e_A* 3kdp_A* 3n2f_A* 3n23_A* 1mo7_A
1mo8_A* 1q3i_A
Length = 1028
Score = 26.4 bits (59), Expect = 3.0
Identities = 9/51 (17%), Positives = 16/51 (31%), Gaps = 8/51 (15%)
Query: 69 GTL--------DIWVNGDRVDVTGEFVENGTETHFTIGDTPAYIKAVSSCN 111
GTL +W + + ++G T A + + CN
Sbjct: 384 GTLTQNRMTVAHMWFDNQIHEADTTENQSGAAFDKTSATWSALSRIAALCN 434
>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B*
1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B
3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E
1vou_E 1vow_E 1voy_E ...
Length = 211
Score = 26.0 bits (58), Expect = 3.4
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 62 YRVVLERG---TLDIWVNGDRVDVTG 84
+R G +DI+ G+++D TG
Sbjct: 81 FRGFAPDGDSVNVDIFAEGEKIDATG 106
>3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase,
P-type ATPase, membrane protein, hydrolase, aluminium
fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 2xzb_A
1iwc_A 1iwf_A
Length = 1034
Score = 26.5 bits (59), Expect = 3.6
Identities = 8/51 (15%), Positives = 16/51 (31%), Gaps = 8/51 (15%)
Query: 69 GTL--------DIWVNGDRVDVTGEFVENGTETHFTIGDTPAYIKAVSSCN 111
GTL +W + ++G + A + ++ CN
Sbjct: 389 GTLTQNRMTVSHLWFDNHIHSADTTEDQSGQTFDQSSETWRALCRVLTLCN 439
>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 259
Score = 26.1 bits (58), Expect = 3.6
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 58 EDETYRVVLERGTLDIWVNGDRVDVTG 84
+ + V + +++ GD VDV+G
Sbjct: 129 SIDGFEVTQKLDFGELFKEGDLVDVSG 155
>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E
2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E
2wrj_E 2wrl_E 2wro_E 2wrr_E ...
Length = 206
Score = 25.5 bits (57), Expect = 4.7
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 62 YRVVLERG---TLDIWVNGDRVDVTG 84
R G T++I+ G+RVDVTG
Sbjct: 81 IRDFNPEGDTVTVEIFKPGERVDVTG 106
>2uzx_B Hepatocyte growth factor receptor; signaling protein/receptor,
leucine rich repeat, receptor ectodomain, signaling
protein, ATP-binding; 2.8A {Homo sapiens} PDB: 2uzy_B
1shy_B 1ssl_A
Length = 727
Score = 26.1 bits (56), Expect = 4.7
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 77 GDRVDVTGEFVENGTETHFTIGDTPAYIKAVSS 109
G + +TG ++ +G H +IG +K+VS+
Sbjct: 651 GTLLTLTGNYLNSGNSRHISIGGKTCTLKSVSN 683
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D*
Length = 197
Score = 25.5 bits (55), Expect = 5.1
Identities = 7/28 (25%), Positives = 10/28 (35%)
Query: 73 IWVNGDRVDVTGEFVENGTETHFTIGDT 100
I V V++ V +E H T
Sbjct: 134 IAVGKQIVNIPSFMVRLDSEKHIDFAPT 161
>2qqk_A Neuropilin-2; VEGF receptor, semaphorin receptor, phage-derived
antibody, developmental protein, differentiation,
glycoprotein; HET: NAG; 2.75A {Homo sapiens} PDB:
2qql_A
Length = 579
Score = 25.7 bits (56), Expect = 5.1
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 47 SKANCTWIVTVEDETYRVVLE 67
S NC WIV + ++VL
Sbjct: 29 SHQNCEWIVYAPEPNQKIVLN 49
>3d3w_A L-xylulose reductase; uronate cycle, short-chain
dehydrogenase/reductase(SDR) superfamily, glucose
metabolism, acetylation, carbohydrate metabolism; HET:
NAP; 1.87A {Homo sapiens} PDB: 1wnt_A* 1pr9_A*
Length = 244
Score = 25.1 bits (56), Expect = 6.8
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 55 VTVEDETYRVVLERGTLDIWVN 76
+ + T R + G +D+ VN
Sbjct: 61 LGDWEATERALGSVGPVDLLVN 82
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 25.3 bits (56), Expect = 7.5
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 6/49 (12%)
Query: 64 VVLERGTLDIWVNGDRVDVTG----EFVENGTETHFTIGDTPAYIKAVS 108
++LE +D GDRV VTG + + D Y+K S
Sbjct: 209 IILEDDLVDSARPGDRVKVTGILDIKQDSPVKRGSRAVFDI--YMKVSS 255
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
0.316 0.135 0.399
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,893,300
Number of extensions: 104201
Number of successful extensions: 354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 353
Number of HSP's successfully gapped: 43
Length of query: 127
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 44
Effective length of database: 4,384,350
Effective search space: 192911400
Effective search space used: 192911400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.7 bits)