RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14653
(191 letters)
>2eel_A Cell death activator CIDE-A; CIDE-N domain, cell death- inducing
DFFA-like effector A, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 91
Score = 104 bits (260), Expect = 9e-30
Identities = 30/84 (35%), Positives = 49/84 (58%)
Query: 2 EEESQRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDY 61
RP+++ ++ R + GV+ASSL+E+ K D L + + ++LE DGT +D E++
Sbjct: 5 SSGPARPFRVSNHDRSSRRGVMASSLQELISKTLDALVIATGLVTLVLEEDGTVVDTEEF 64
Query: 62 FCTLENNTTLMVLFDNEKWTPVKQ 85
F TL +NT M+L +KW P
Sbjct: 65 FQTLGDNTHFMILEKGQKWMPSGP 88
>1d4b_A CIDE B, human cell death-inducing effector B; alpha/beta roll,
apoptosis; NMR {Homo sapiens} SCOP: d.15.2.1
Length = 122
Score = 102 bits (256), Expect = 9e-29
Identities = 32/94 (34%), Positives = 55/94 (58%), Gaps = 3/94 (3%)
Query: 2 EEESQRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDY 61
QRP+++ D+KR + G+ A++ +E+ KA + L + + ++LE DGT +D ED+
Sbjct: 31 APPPQRPFRVCDHKRTIRKGLTAATRQELLAKALETL-LLNGVLTLVLEEDGTAVDSEDF 89
Query: 62 FCTLENNTTLMVLFDNEKWTPVKQFVDAVDGSHH 95
F LE++T LMVL + W+P + + HH
Sbjct: 90 FQLLEDDTCLMVLQSGQSWSPTR--SGVLHHHHH 121
>1f2r_I Inhibitor of caspase-activated DNAse; alpha-beta roll,
protein-protein complex, DNA binding protein; NMR {Mus
musculus} SCOP: d.15.2.1
Length = 100
Score = 96.9 bits (241), Expect = 8e-27
Identities = 30/78 (38%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 7 RPYKIIDYKRERKVGVVASSLEEIKRKAQDKL--SNTSDNIKILLESDGTEIDEEDYFCT 64
+P + + GV ASSLEE++ KA + L + I ++L DGT +D++DYF
Sbjct: 19 KPCLLRRNHSRDQHGVAASSLEELRSKACELLAIDKSLTPITLVLAEDGTIVDDDDYFLC 78
Query: 65 LENNTTLMVLFDNEKWTP 82
L +NT + L NEKWT
Sbjct: 79 LPSNTKFVALACNEKWTY 96
>1v0d_A DNA fragmentation factor 40 kDa subunit; hydrolase, nuclease,
caspase-activated DNAse; HET: DNA; 2.6A {Mus musculus}
SCOP: d.4.1.7 PDB: 1f2r_C 1c9f_A 1ibx_A*
Length = 329
Score = 97.4 bits (242), Expect = 9e-25
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 1/84 (1%)
Query: 7 RPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLE 66
+ K+ K GV A S +E+ RK + ++ L DGTE+ +D F L
Sbjct: 9 KCVKLRALHSACKFGVAARSCQELLRKGCVRFQLPMPGSRLCLYEDGTEVT-DDCFPGLP 67
Query: 67 NNTTLMVLFDNEKWTPVKQFVDAV 90
N+ L++L E W +
Sbjct: 68 NDAELLLLTAGETWHGYVSDITRF 91
>1ibx_B Chimera of IGG binding protein G and DNA fragmentation factor 45;
DFF40, DFF45, protein-protein complex, CIDE, CIDE domain
complex; HET: DNA; NMR {Streptococcus SP} SCOP: d.15.2.1
Length = 145
Score = 89.9 bits (222), Expect = 2e-23
Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 2 EEESQRPYKIIDYKRERKVGVVASSLEEIKRKAQDKL--SNTSDNIKILLESDGTEIDEE 59
E + +P + + GV AS LE+++ KA D L + + ++L DGT +D++
Sbjct: 59 EIRTLKPCLLRRNYSREQHGVAASCLEDLRSKACDILAIDKSLTPVTLVLAEDGTIVDDD 118
Query: 60 DYFCTLENNTTLMVLFDNEKWTP 82
DYF L +NT + L NEKW
Sbjct: 119 DYFLCLPSNTKFVALASNEKWAY 141
>3v2d_D 50S ribosomal protein L2; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_B 2hgj_D 2hgq_D 2hgu_D 1vsa_B 2j03_D 2jl6_D
2jl8_D 2v47_D 2v49_D 2wdi_D 2wdj_D 2wdl_D 2wdn_D 2wh2_D
2wh4_D 2wrj_D 2wrl_D 2wro_D 2wrr_D ...
Length = 276
Score = 32.1 bits (74), Expect = 0.076
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 7 RPYKIIDYKRERKVGVVA 24
R Y+IID+KR KVG+ A
Sbjct: 60 RLYRIIDFKRWDKVGIPA 77
>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 = 32.1 bits (72), Expect = 0.11
Identities = 31/221 (14%), Positives = 63/221 (28%), Gaps = 65/221 (29%)
Query: 1 MEEESQRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEED 60
++ ++ ++ +V +EE+ R L + I E +
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS-----PIKTEQRQPSMMTRM 111
Query: 61 YFCTLENNTTLMVLF-DNEKWTPVKQFVDAVDGSHHPLTQLLSLLQED------------ 107
Y + L+ DN+ + K V P +L L E
Sbjct: 112 YIEQRDR------LYNDNQVFA--KYNVS----RLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 108 -IGQ--LSLLGGQELELLSDMD-------------PDNLLDII--------------PDK 137
G+ ++L ++ MD P+ +L+++ D
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 138 MF-----LNQVKEASCRFLSDKRNAQEALDLLKLYHKSYIN 173
++ ++ R L K L LL + + N
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260
>2fup_A Hypothetical protein PA3352; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 1.48A {Pseudomonas aeruginosa} SCOP: a.47.5.1
Length = 157
Score = 28.8 bits (64), Expect = 0.64
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 3/48 (6%)
Query: 96 PLTQLLSLLQEDIGQLSLLGG---QELELLSDMDPDNLLDIIPDKMFL 140
LL L EDIG + L +E + L + L ++ K L
Sbjct: 4 DSPTLLDLFAEDIGHANQLLQLVDEEFQALERRELPVLQQLLGAKQPL 51
>2zy9_A Mg2+ transporter MGTE; membrane protien, metal transport; 2.94A
{Thermus thermophilus} PDB: 2yvx_A
Length = 473
Score = 29.1 bits (66), Expect = 0.94
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 104 LQEDIGQLSLLGGQEL-ELLSDMDPDNLLDIIPDKMFLNQVKEASCRFLSDKRNAQEALD 162
Q + L L L E+L ++ D+L D + + + A + L D + + +
Sbjct: 91 EQAEY--LKTLPPWRLREILEELSLDDLADALQA---VRKEDPAYFQRLKDLLDPRTRAE 145
Query: 163 LLKL 166
+ L
Sbjct: 146 VEAL 149
>1vq8_A 50S ribosomal protein L2P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: b.34.5.3 b.40.4.5 PDB:
1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A*
1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A*
1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ...
Length = 240
Score = 28.7 bits (65), Expect = 1.1
Identities = 2/18 (11%), Positives = 4/18 (22%)
Query: 7 RPYKIIDYKRERKVGVVA 24
+ K E +
Sbjct: 24 YKADLEHRKVEDGDVIAG 41
>3r8s_C 50S ribosomal protein L2; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_C 2wwq_C 3oat_C* 3oas_C* 3ofd_C 3ofc_C 3ofr_C*
3ofz_C* 3og0_C 3ofq_C 3r8t_C 3i1n_C 1vs8_C 1vs6_C
2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C 3df2_C ...
Length = 271
Score = 27.1 bits (61), Expect = 3.4
Identities = 8/18 (44%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 7 RPYKIIDYKRERKVGVVA 24
+ Y+I+D+KR K G+ A
Sbjct: 59 QAYRIVDFKR-NKDGIPA 75
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 269
Score = 27.1 bits (61), Expect = 3.5
Identities = 5/18 (27%), Positives = 10/18 (55%), Gaps = 1/18 (5%)
Query: 7 RPYKIIDYKRERKVGVVA 24
R Y+ ID++R + +
Sbjct: 56 RLYRKIDFRR-NEKDIYG 72
>2yvy_A MGTE, Mg2+ transporter MGTE; membrane protein, transport protein;
2.30A {Thermus thermophilus} PDB: 2yvz_A
Length = 278
Score = 26.4 bits (59), Expect = 6.0
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 104 LQEDIGQLSLLGGQEL-ELLSDMDPDNLLDIIPDKMFLNQVKEASCRFLSDKRNAQEALD 162
Q + L L L E+L ++ D+L D + + + A + L D + + +
Sbjct: 71 EQAEY--LKTLPPWRLREILEELSLDDLADALQA---VRKEDPAYFQRLKDLLDPRTRAE 125
Query: 163 LLKL 166
+ L
Sbjct: 126 VEAL 129
>1giy_D 50S ribosomal protein L2; ribosome assembly, protein synthesis,
LIFE; 5.50A {Thermus thermophilus} SCOP: i.1.1.1 PDB:
1ml5_d* 1yl3_D 2b66_D 2b9n_D 2b9p_D
Length = 178
Score = 25.6 bits (57), Expect = 8.1
Identities = 8/16 (50%), Positives = 11/16 (68%), Gaps = 1/16 (6%)
Query: 9 YKIIDYKRERKVGVVA 24
Y+IID+KR K G+
Sbjct: 2 YRIIDFKR-DKDGIPG 16
>3zuk_A Endopeptidase, peptidase family M13; hydrolase-inhibitor complex,
pathogenicity, phagosome matura; HET: RDF 211 PGE PG4;
2.60A {Mycobacterium tuberculosis}
Length = 699
Score = 26.2 bits (58), Expect = 8.4
Identities = 9/60 (15%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
Query: 28 EEIKRKAQDKLSNTSDNI---KILLESDGTEIDEEDYFCTLENNTTLMVLFDNEKW-TPV 83
+ +++A KL+ + + + ID +D + ++ + + K PV
Sbjct: 416 PQTRQRALAKLNKFTAKVGYPIKWRDYSKLAIDRDDLYGNVQRGYAVNHDRELAKLFGPV 475
>3dwb_A ECE-1, endothelin-converting enzyme 1; protein, disease mutation,
glycoprotein, hirschsprung diseas hydrolase, membrane,
metal-binding; HET: 5HD RDF; 2.38A {Homo sapiens}
Length = 670
Score = 26.2 bits (58), Expect = 9.6
Identities = 7/45 (15%), Positives = 16/45 (35%), Gaps = 10/45 (22%)
Query: 28 EEIKRKAQDKLSNTSDNI----------KILLESDGTEIDEEDYF 62
EE ++ A++K + I ++ + + YF
Sbjct: 387 EETRKSAKEKADAIYNMIGYPNFIMDPKELDKVFNDYTAVPDLYF 431
>1r1h_A Neprilysin; enkephalinase, glycoprotein, metalloprotease,
hydrolase; HET: NAG BIR; 1.95A {Homo sapiens} SCOP:
d.92.1.4 PDB: 1dmt_A* 1r1i_A* 1r1j_A* 1y8j_A* 2qpj_A*
2yb9_A*
Length = 696
Score = 25.9 bits (57), Expect = 9.7
Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 11/64 (17%)
Query: 28 EEIKRKAQDKLSNTSDNI----KILLES-------DGTEIDEEDYFCTLENNTTLMVLFD 76
E K++A++K + I I+ E++YF + N
Sbjct: 409 AETKKRAEEKALAIKERIGYPDDIVSNDNKLNNEYLELNYKEDEYFENIIQNLKFSQSKQ 468
Query: 77 NEKW 80
+K
Sbjct: 469 LKKL 472
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 0.131 0.359
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,797,394
Number of extensions: 159652
Number of successful extensions: 349
Number of sequences better than 10.0: 1
Number of HSP's gapped: 344
Number of HSP's successfully gapped: 26
Length of query: 191
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 103
Effective length of database: 4,244,745
Effective search space: 437208735
Effective search space used: 437208735
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 (21.8 bits)
S2: 54 (24.7 bits)