RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2968
(173 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 = 35.2 bits (80), Expect = 0.007
Identities = 16/96 (16%), Positives = 33/96 (34%), Gaps = 29/96 (30%)
Query: 29 VITSLPLLVAVITPWIVPESARWLVSQGRVDEAVVIMKRFEKINNKKVDPKL---YQQLK 85
V+T+ P +++I I A W ++ +N K+ + L+
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATW--------------DNWKHVNCDKLTTIIESSLNVLE 367
Query: 86 ETCQRQAKQEIDGKRYSA-VINP---KLPLIILGMI 117
R+ + + P +P I+L +I
Sbjct: 368 PAEYRK--------MFDRLSVFPPSAHIPTILLSLI 395
Score = 32.1 bits (72), Expect = 0.077
Identities = 29/192 (15%), Positives = 58/192 (30%), Gaps = 56/192 (29%)
Query: 1 MSIAIFFTLAASLLPWIAYYVANWQYLC---VITSLPLLVAVITPW----------IVPE 47
++I A S+ +A + NW+++ + T + + V+ P + P
Sbjct: 328 RRLSII---AESIRDGLATW-DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 48 SAR---------WLVSQGRVDEAVVIMKRFEKINNKKVDPK--------LYQQLKETCQR 90
SA W V++ + K + + PK +Y +LK +
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVM--VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 91 QA---KQEIDGKRYSAV----INPKLPLIILGMIGILGGALCLFLPETLGQDLPQTLQDG 143
+ + +D Y+ + +P + + G L
Sbjct: 442 EYALHRSIVD--HYNIPKTFDSDDLIPPYLDQYF-------YSHI----GHHLKNIEHPE 488
Query: 144 ENFGRNQKFLDF 155
FLDF
Sbjct: 489 RMTLFRMVFLDF 500
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.4 bits (73), Expect = 0.045
Identities = 12/60 (20%), Positives = 25/60 (41%), Gaps = 18/60 (30%)
Query: 46 PESAR-WLVSQGRVDEAVVIMKRFEKINNKKVDPKLYQQLKETCQRQAKQEIDG--KRYS 102
PES R W R ++ + + + Q+ +E +AK++++ +R S
Sbjct: 84 PESIRKW-----REEQRKRLQELDAASKVME------QEWRE----KAKKDLEEWNQRQS 128
>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings,
fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus
gallus} SCOP: h.1.8.1 PDB: 1ei3_A
Length = 491
Score = 31.1 bits (69), Expect = 0.19
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 55 QGRVDEAVVIMKRFEKINNKKVDPKLYQQLKETCQRQAKQEIDGKRY 101
Q + E VV MKR E +D K+ + K +C R ++D + Y
Sbjct: 138 QNSIQEQVVEMKRLEV----DIDIKI-RACKGSCARSFDYQVDKEGY 179
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 28.4 bits (64), Expect = 1.1
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 4/63 (6%)
Query: 112 IILGMIGILGGALCLF-LPETLGQD--LPQTLQDGENFGRNQKFLDFPCCGNAGVRGAIM 168
+ L ++ +PET D + L + N F + G I
Sbjct: 158 LFLLVLCAGVTFSMARWMPETRPVDAPRTRLLTSYKTLFGNSGFNCYLLML-IGGLAGIA 216
Query: 169 AYI 171
A+
Sbjct: 217 AFE 219
>1vrm_A Hypothetical protein TM1553; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI; HET: UNL; 1.58A {Thermotoga maritima} SCOP:
d.96.2.1
Length = 325
Score = 28.3 bits (64), Expect = 1.1
Identities = 5/14 (35%), Positives = 9/14 (64%)
Query: 95 EIDGKRYSAVINPK 108
+DG RY +++P
Sbjct: 241 VVDGVRYHHILDPS 254
>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR),
beta-hairpin, alpha-solenoi transport protein; 2.60A
{Bos taurus}
Length = 291
Score = 28.2 bits (62), Expect = 1.3
Identities = 9/63 (14%), Positives = 21/63 (33%)
Query: 33 LPLLVAVITPWIVPESARWLVSQGRVDEAVVIMKRFEKINNKKVDPKLYQQLKETCQRQA 92
L L + + + + L+ R+D A +K+ + + +L
Sbjct: 121 LRTLHQGDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGE 180
Query: 93 KQE 95
K +
Sbjct: 181 KLQ 183
Score = 25.9 bits (56), Expect = 7.2
Identities = 12/64 (18%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 52 LVSQGRVDEAVVIMKRFEKINNKKVDPKLYQQLKETCQRQAKQEIDGKRYSAV---INPK 108
++QGR + A +++ ++ P+ L Q K RY + +
Sbjct: 210 HMAQGRWEAAEGVLQEALDKDSG--HPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRS 267
Query: 109 LPLI 112
P I
Sbjct: 268 HPFI 271
>1g2r_A Hypothetical cytosolic protein; NUSA-INFB operon, structural
genomics, PSI, protein structure initiative; 1.35A
{Streptococcus pneumoniae} SCOP: d.192.1.1
Length = 100
Score = 26.6 bits (59), Expect = 2.0
Identities = 6/33 (18%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 66 KRFEKINNKKVDPKLYQQLKETCQRQ-AKQEID 97
K F + + +V+ Y +L + ++E+
Sbjct: 66 KVFNRSFSMEVEESFYDELIAYVDHKVKRRELG 98
>2o18_A Thiamine biosynthesis lipoprotein APBE; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.20A {Escherichia coli} PDB:
3pnd_A*
Length = 340
Score = 27.6 bits (62), Expect = 2.0
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 95 EIDGKRYSAVINPK 108
E+DGKR S VI+P+
Sbjct: 244 ELDGKRLSHVIDPQ 257
>2kat_A Uncharacterized protein; NESG, structure, structural genomics,
PSI-2, protein structure initiative; NMR {Bordetella
parapertussis}
Length = 115
Score = 26.1 bits (58), Expect = 4.0
Identities = 8/44 (18%), Positives = 19/44 (43%)
Query: 52 LVSQGRVDEAVVIMKRFEKINNKKVDPKLYQQLKETCQRQAKQE 95
L QG A + + D ++ ++L+ +R A+++
Sbjct: 63 LQGQGDRAGARQAWESGLAAAQSRGDQQVVKELQVFLRRLARED 106
>1ots_A Voltage-gated CLC-type chloride channel ERIC; CLC chloride channel,
FAB complex, membrane protein; 2.51A {Escherichia coli}
SCOP: f.20.1.1 PDB: 2fee_A 2h2p_A 2exw_A 1kpk_A 2exy_A
2htl_A 3ejy_A 2ht2_A 2fed_A 2fec_A 1otu_A 3ejz_A 2ht4_A
2htk_A 2ht3_A 1ott_A 2h2s_A 3det_A 2ez0_A 3nmo_A ...
Length = 465
Score = 26.6 bits (59), Expect = 4.8
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 110 PLIILGMIGILGGALCLFLPETLG 133
+++ G IG L G L P T G
Sbjct: 291 WVLMGGAIGGLCGLLGFVAPATSG 314
>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S
rRNA, NESG, structural genomics, PSI, protein structure
initiative; HET: SAM; 2.80A {Escherichia coli} SCOP:
c.66.1.33
Length = 269
Score = 26.0 bits (57), Expect = 7.1
Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 13/57 (22%)
Query: 9 LAASLLPWIAYYVANWQYLCVITSLPL-------LVAVITPWIVPESARWLVSQGRV 58
AA P + + VA+ LP ++ + P E AR + G V
Sbjct: 124 AAAKRYPQVTFCVAS------SHRLPFSDTSMDAIIRIYAPCKAEELARVVKPGGWV 174
>3nd0_A SLL0855 protein; CLC family CL-/H+ antiporter, CLC_EC1 homolog,
transport protein; 3.20A {Synechocystis} PDB: 3q17_A
Length = 466
Score = 25.8 bits (57), Expect = 9.0
Identities = 8/28 (28%), Positives = 10/28 (35%), Gaps = 1/28 (3%)
Query: 107 PKLPLIILGMI-GILGGALCLFLPETLG 133
P L G + G + G L LF
Sbjct: 279 PPLATKWKGFLLGSIIGILSLFPLPLTD 306
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
0.325 0.141 0.444
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,759,835
Number of extensions: 155351
Number of successful extensions: 451
Number of sequences better than 10.0: 1
Number of HSP's gapped: 451
Number of HSP's successfully gapped: 16
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.7 bits)