RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1555
(271 letters)
>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 = 41.0 bits (95), Expect = 3e-04
Identities = 38/284 (13%), Positives = 75/284 (26%), Gaps = 88/284 (30%)
Query: 1 LSTKTITKSTSALFFKPEVQELLLKLTRID-LSKVF----RKQKYG-----QELKPPEYK 50
K + ++ K E+ +++ + ++F KQ+ +E+ YK
Sbjct: 33 FDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK 92
Query: 51 FLT----TEEVEK-LKEEAYNRAIKKMQ--MPPIVP---ARDDSKLEV---LSND----- 92
FL TE+ + + Y ++ +R L++ L
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 93 ----------KELLGHDVCK-YVFTD--------ITFGISDAKRIIVVREPDGLLREANT 133
K + DVC Y + P+ +L
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK--------NCNSPETVLEMLQ- 203
Query: 134 NERHRMNNIYFSRPGATYKHPDMFEE--ENLKALCDRKEYV---FILDRAATQYEPDDQL 188
++++ + SR + L+ L K Y +L
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL------------ 251
Query: 189 YHNILNTTFTHIHENNGFDHLRSTRHFGCLVFFLANN-NIIDNL 231
N+ N N F+ C + + D L
Sbjct: 252 --NVQNA--KAW---NAFN-------LSCKILLTTRFKQVTDFL 281
Score = 36.8 bits (84), Expect = 0.008
Identities = 40/237 (16%), Positives = 73/237 (30%), Gaps = 70/237 (29%)
Query: 14 FFKPEVQELLLKLTRIDLSKVFRKQKYGQELKPPEYK----FLTTEEVEKLKEEA----Y 65
EV+ LLLK Q+L P E + E +++
Sbjct: 298 LTPDEVKSLLLKYLDCRP----------QDL-PREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 66 NRAIKKMQMPPIVPARDDSKLEVLSND--KELLGHDVCKY----VF---TDITFGI---- 112
+ + ++ I+ +S L VL +++ + VF I +
Sbjct: 347 WKHVNCDKLTTII----ESSLNVLEPAEYRKM-------FDRLSVFPPSAHIPTILLSLI 395
Query: 113 ------SDAKRIIVVREPDGLLREANTNERHRMNNIYFSRPGATYKHPDMFEEENLKALC 166
SD ++ L+ + + +IY K EN AL
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE-----LKVKL----ENEYALH 446
Query: 167 DRKEYVFILDR--AATQYEPDDQLYHNILNTTFTHIHENNGFDHLRSTRHFGCLVFF 221
I+D ++ DD + + ++HI G HL++ H + F
Sbjct: 447 RS-----IVDHYNIPKTFDSDDLIPPYLDQYFYSHI----GH-HLKNIEHPERMTLF 493
>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 = 0.016
Identities = 33/181 (18%), Positives = 55/181 (30%), Gaps = 72/181 (39%)
Query: 4 KTITKSTSALFFKPEVQELLLKLTRIDLSKVFRKQKYGQELKPPEYKFLTTEEV---EKL 60
K I + +++ F+ E + LL T+ + Q P LT E E L
Sbjct: 1708 KEINEHSTSYTFRSE--KGLLSATQ-----------FTQ----PA---LTLMEKAAFEDL 1747
Query: 61 KEEAYNRAIKKMQMPPIVPARDDSKLEVLSNDKELLGHD-------VCKYVFTDITFGIS 113
K + ++PA D GH D+ I
Sbjct: 1748 KSKG------------LIPA-----------DATFAGHSLGEYAALAS---LADV-MSIE 1780
Query: 114 DAKRIIVVREPDGLL------REANTNERHRMNNIYFSRPGATYKHPDMFEEENLKALCD 167
++ R G+ R+ + M I R A+ F +E L+ + +
Sbjct: 1781 SLVEVVFYR---GMTMQVAVPRDELGRSNYGMIAINPGRVAAS------FSQEALQYVVE 1831
Query: 168 R 168
R
Sbjct: 1832 R 1832
Score = 31.2 bits (70), Expect = 0.45
Identities = 18/97 (18%), Positives = 32/97 (32%), Gaps = 17/97 (17%)
Query: 168 RKEYVFILDRAATQYEPDDQLYHNI-LNTTF-THI------HENNGFDHL--RSTRHFGC 217
++++ IL + DD+ L F ++ + FD + F
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93
Query: 218 LVFFLANNNIIDNLLLQNLHCNM---IEDAVWLIKVY 251
+L N+I + L L + LIK Y
Sbjct: 94 C--YLEGNDI--HALAAKLLQENDTTLVKTKELIKNY 126
>3fbi_A Mediator of RNA polymerase II transcription subunit 7;
proline-rich stretches, right-handed four-helix bundle,
protein-protein complex; 2.80A {Saccharomyces
cerevisiae} PDB: 3fbn_A
Length = 84
Score = 28.4 bits (63), Expect = 0.62
Identities = 11/40 (27%), Positives = 15/40 (37%)
Query: 46 PPEYKFLTTEEVEKLKEEAYNRAIKKMQMPPIVPARDDSK 85
PP KF T +EKL + +A Q P +
Sbjct: 18 PPYVKFFTQSNLEKLPKYKEKKAASAKQTAPNNSNGGSEE 57
>1vio_A Ribosomal small subunit pseudouridine synthase A; structural
genomics, lyase; 1.59A {Haemophilus influenzae} SCOP:
d.265.1.3 d.66.1.5
Length = 243
Score = 29.8 bits (68), Expect = 0.70
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 41 GQELKPPEYKFLTTEEVEKLKEEA 64
+ L+ EY+ LT E+EKL E
Sbjct: 213 DESLEEGEYRPLTQSEIEKLVEGG 236
>2wsc_D Photosystem I reaction center subunit II, chloroplastic;
photosynthesis, electron transfer, membrane proteins,
large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A
{Spinacia oleracea} PDB: 2wse_D* 2wsf_D* 2o01_D* 3lw5_D*
Length = 212
Score = 29.5 bits (65), Expect = 1.0
Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 126 GLLREANTNERHRMNNIYFSRPGATYKHPD-----MFEEENLKALCDRKEYVFILDRAAT 180
GLLR+A E + + + S ++ P M E NL L +++ + + R +
Sbjct: 91 GLLRKAQVEEFYVIT--WESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTRLRS 148
Query: 181 QYEPDDQLYHNILNTTFTHIHENNG 205
+Y+ Q Y + ++H +G
Sbjct: 149 KYKIKYQFYRVFPSGEVQYLHPKDG 173
>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 = 28.0 bits (61), Expect = 2.0
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 13/29 (44%)
Query: 58 EKLKEEAYNRAIKKMQ------MPPIVPA 80
EK +A+KK+Q PA
Sbjct: 18 EK-------QALKKLQASLKLYADDSAPA 39
Score = 26.8 bits (58), Expect = 6.2
Identities = 7/28 (25%), Positives = 10/28 (35%), Gaps = 10/28 (35%)
Query: 158 EEENLKALCDRKEYVFILDRAATQYEPD 185
E++ LK K L + Y D
Sbjct: 18 EKQALK-----K-----LQASLKLYADD 35
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome,
RNA modifying enzyme, isomerase; 2.60A {Escherichia
coli}
Length = 237
Score = 28.4 bits (64), Expect = 2.4
Identities = 8/43 (18%), Positives = 16/43 (37%)
Query: 43 ELKPPEYKFLTTEEVEKLKEEAYNRAIKKMQMPPIVPARDDSK 85
+ E++ LT +E+ L + N + + P K
Sbjct: 162 GIPLGEWRDLTDDELIDLFKLIENSSSEVKPKAKAKPKTAGIK 204
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 28.3 bits (64), Expect = 2.9
Identities = 8/27 (29%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 51 FLTTEEVEKLK--EEAYNRAIKKMQMP 75
+T E+ L+ E YN +I++M +
Sbjct: 383 MVTEEDKRTLRDIETFYNTSIEEMPLN 409
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 27.9 bits (63), Expect = 3.3
Identities = 7/27 (25%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 51 FLTTEEVEKLK--EEAYNRAIKKMQMP 75
F+ +++ L+ E+ Y+ I +M M
Sbjct: 379 FVKNDDIRILRDIEQYYSTQIDEMPMN 405
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 27.8 bits (62), Expect = 5.2
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 30 DLSKVFRKQKYGQELKPPEYKFLTTEEVEKLKEEAYNRAIKKMQMPPIV 78
DL + R + GQ+ Y+ ++ + VE EE RA KKM + +
Sbjct: 659 DLQAMARAHRIGQKNHVMVYRLVSKDTVE---EEVLERARKKMILEYAI 704
>3dh3_A Ribosomal large subunit pseudouridine synthase F; protein-RNA
complex, S4 domain, alpha/beta protein, isomerase,
RNA-binding, rRNA processing; HET: FHU; 3.00A
{Escherichia coli}
Length = 290
Score = 27.2 bits (61), Expect = 6.5
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 5/62 (8%)
Query: 24 LKLTRIDLSKVFRKQKYGQELKPPEYKFLTTEEVEKLKEEAYNRAIKKMQMPPIVPARDD 83
KL R + V + E++ LT +E+ L + N + + P
Sbjct: 201 KKLERTRIMNVSLS-----GIPLGEWRDLTDDELIDLFKLIENSSSEVKPKAKAKPKTAG 255
Query: 84 SK 85
K
Sbjct: 256 IK 257
>3nkh_A Integrase; alpha-fold, MRSA protein, structural genomics, PSI-2,
protei structure initiative; 2.50A {Staphylococcus
aureus subsp}
Length = 244
Score = 26.5 bits (59), Expect = 9.0
Identities = 6/31 (19%), Positives = 13/31 (41%)
Query: 41 GQELKPPEYKFLTTEEVEKLKEEAYNRAIKK 71
+ L +L E+E + ++ +A K
Sbjct: 15 TENLYFQSNAYLELNEIESIIKDINTKAQKM 45
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
0.320 0.137 0.400
Gapped
Lambda K H
0.267 0.0676 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,205,118
Number of extensions: 257063
Number of successful extensions: 588
Number of sequences better than 10.0: 1
Number of HSP's gapped: 585
Number of HSP's successfully gapped: 29
Length of query: 271
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,133,061
Effective search space: 739817919
Effective search space used: 739817919
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 (21.8 bits)
S2: 56 (25.5 bits)