RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16970
(257 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 = 48.7 bits (115), Expect = 8e-07
Identities = 36/270 (13%), Positives = 79/270 (29%), Gaps = 80/270 (29%)
Query: 17 QVLRNCFATALEVRQELQDVRKVHLNEGTVRIRLNENNLTAKRLHRAPELSIRNQRARSR 76
V + F + +++QD+ K L++ + + + R + Q
Sbjct: 23 SVFEDAFVDNFDC-KDVQDMPKSILSKEEIDHIIMSKD-AVSGTLRLFWTLLSKQ----- 75
Query: 77 KVENVV---LKPVLGQIYIYIYH-MHWTPAQQA--NVLFSDEPRVNFGDVRIPKGFDFPR 130
E +V ++ VL Y ++ + Q + ++ ++ + D ++ ++ R
Sbjct: 76 --EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR 133
Query: 131 PQKIGQL-AGVHGVSSDPIVIVD-----------AQTLLVPNFSYDGEAPDAKFWVGTGP 178
Q +L + + V++D L ++ + FW+
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL--SYKVQCKMDFKIFWLNLKN 191
Query: 179 HPSP-------------------------QGIRVPDENGKEEPLRR------YNRKTIVL 207
SP I++ + + E LRR Y +VL
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE-LRRLLKSKPYENCLLVL 250
Query: 208 TLPGELTVFEIGHFGVW----CEAFTVDFG 233
V AF +
Sbjct: 251 L-------------NVQNAKAWNAF--NLS 265
Score = 44.1 bits (103), Expect = 3e-05
Identities = 26/120 (21%), Positives = 38/120 (31%), Gaps = 28/120 (23%)
Query: 28 EVRQELQDVRKVHL-----NEGTVRI-----RLNENNLTAKRLHRAPELSIRNQRARSRK 77
+V + + K L E T+ I L LHR SI + +
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR----SIVDHYNIPKT 458
Query: 78 VENVVLKPVLGQIYIY--I-YHMHWTPAQQANVLFSDEPRVNFGDVRIPKGFDFPRPQKI 134
++ L P Y Y I +H+ + + V F D F F QKI
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHL--KNIEHPE-RMTLFRMV-FLD------FRFLE-QKI 507
Score = 38.3 bits (88), Expect = 0.002
Identities = 41/301 (13%), Positives = 85/301 (28%), Gaps = 88/301 (29%)
Query: 10 NDRFIVSQVLRNCFATALEVRQELQDVRK-----VH--------------LNEGTVRIRL 50
N F V R L++RQ L ++R + V+ ++
Sbjct: 123 NQVFAKYNVSR--LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 51 NENN---LTAKRLHRAPELSIRNQRARSRKVENVVLKPVLGQIYIYIYHMHWTPAQQANV 107
+ L K + PE + + +++ +H +
Sbjct: 181 D-FKIFWLNLKNCNS-PETVLEMLQKLLYQIDPN-WTSRSDHSSNIKLRIHSI-QAELRR 236
Query: 108 LFSDEPRVN----FGDVRIP---KGFDFP-------RPQKIGQLAGVHGVSSDPIVIVDA 153
L +P N +V+ F+ R +++ + ++ I +
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV--TDFLSAATTTHISLDHH 294
Query: 154 QTLLVPNFSYDGEAPD--AKFWVGTGPH--P------SPQGI-----RVPDENGKEEPLR 198
L P E K ++ P P +P+ + + D + +
Sbjct: 295 SMTLTP-----DEVKSLLLK-YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 199 RYN----RKTIVLTL----PGELTVFEIGHFGVWCEAFTVDFGHIQIPANVNMPPS-LKM 249
N I +L P E F + +V F P + ++P L +
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYR----KMF----DRLSV-F-----PPSAHIPTILLSL 394
Query: 250 L 250
+
Sbjct: 395 I 395
>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 = 31.8 bits (71), Expect = 0.11
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 18/41 (43%)
Query: 32 ELQDVRKVHLNEGTVRIRLNENNLTAKRLH---RAPELSIR 69
E Q ++K+ + +L +L+ AP L+I+
Sbjct: 18 EKQALKKL------------QASL---KLYADDSAPALAIK 43
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon
DNA, bipartite DNA-binding, HTH- motif, DNA binding
protein/DNA complex; 2.69A {Caenorhabditis elegans}
SCOP: a.4.1.2 a.4.1.2
Length = 141
Score = 28.9 bits (64), Expect = 0.81
Identities = 15/66 (22%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 10 NDRFIVSQVLRNCFATALEVRQELQDVRKVHLNEGTVRIRLNENNLTAKRLHR-APELSI 68
++R ++ N TA ++R ELQ + ++ T+ + + + ++ R AP LS
Sbjct: 65 DERNVIRAA-SNSCKTARDIRNELQ----LSASKRTILNVIKRSGVIVRQKLRPAPLLSA 119
Query: 69 RNQRAR 74
++ R
Sbjct: 120 DHKLKR 125
>1j1j_A Translin; testis/brain RNA binding protein, ssDNA binding protein,
RNA protein, DNA binding protein; 2.20A {Homo sapiens}
SCOP: a.118.16.1 PDB: 3qb5_A 3pja_A 1key_A
Length = 240
Score = 27.4 bits (60), Expect = 5.1
Identities = 18/101 (17%), Positives = 33/101 (32%), Gaps = 2/101 (1%)
Query: 5 SGASMNDRFIVSQVLRNCFATALEVRQELQD-VRKVHLNEGTVRIRLNENNLTAKRLHRA 63
SM+ I + L+ A ++R+E++ V+ + + L + A
Sbjct: 9 HHGSMSVSEIFVE-LQGFLAAEQDIREEIRKVVQSLEQTAREILTLLQGVHQGAGFQDIP 67
Query: 64 PELSIRNQRARSRKVENVVLKPVLGQIYIYIYHMHWTPAQQ 104
+ + K LK Y +H HW Q
Sbjct: 68 KRCLKAREHFGTVKTHLTSLKTKFPAEQYYRFHEHWRFVLQ 108
>2bju_A Plasmepsin II; aspartic proteinase, drug design, malaria, aspartyl
protease, glycoprotein, hydrolase, signal, zymogen; HET:
IH4; 1.56A {Plasmodium falciparum} SCOP: b.50.1.2 PDB:
1pfz_A 1xdh_A* 1lf3_A 1w6h_A* 1w6i_A* 1lf4_A* 1lf2_A*
1lee_A* 1m43_A* 2igx_A* 1sme_A* 1me6_A* 1xe6_A* 1xe5_A*
2igy_A* 2r9b_A 3f9q_A 3qrv_A 3qs1_A* 2anl_A* ...
Length = 453
Score = 27.4 bits (61), Expect = 5.5
Identities = 9/95 (9%), Positives = 21/95 (22%), Gaps = 26/95 (27%)
Query: 35 DVRKVHLNEGTVRIRLNENNLTAKRLHRAPELSIRN---------------QRARSRKVE 79
++ ++ N + I N + L ++N +
Sbjct: 69 EMNEILKNSEHLTIGFKVENAHDRILKTIKTHKLKNYIKESVNFLNSGLTKTNYLGSSND 128
Query: 80 NVVLKPVL-----GQIYIYIYHMHWTPAQQANVLF 109
N+ L G + Q +
Sbjct: 129 NIELVDFQNIMFYGDAEV------GDNQQPFTFIL 157
>3qb5_K Translin-associated protein X; alpha helical bundle, ribonuclease,
hydrolase; 2.95A {Homo sapiens} PDB: 3pja_J
Length = 290
Score = 26.6 bits (58), Expect = 8.6
Identities = 16/108 (14%), Positives = 35/108 (32%), Gaps = 17/108 (15%)
Query: 6 GASMNDRFIVSQVLRNCFATALEVRQELQD-----VRKVHLNEGTVRIRLNENNLTAKRL 60
G +N V ++ F L+ R + + R + + L+ R+
Sbjct: 26 GKDVNSSSPVMLAFKS-FQQELDARHDKYERLVKLSRDITVESKRTIFLLH-------RI 77
Query: 61 HRAPELSIRNQRARSR--KVENVV--LKPVLGQIYIYIYHMHWTPAQQ 104
AP++ + + V + + L ++ +H T Q
Sbjct: 78 TSAPDMEDILTESEIKLDGVRQKIFQVAQELSGEDMHQFHRAITTGLQ 125
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
0.321 0.139 0.423
Gapped
Lambda K H
0.267 0.0512 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,094,703
Number of extensions: 252490
Number of successful extensions: 444
Number of sequences better than 10.0: 1
Number of HSP's gapped: 444
Number of HSP's successfully gapped: 9
Length of query: 257
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 165
Effective length of database: 4,133,061
Effective search space: 681955065
Effective search space used: 681955065
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: 56 (25.9 bits)