RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10920
(271 letters)
>1m48_A Interleukin-2; four-helix bundle, small molecule complex, cytokine;
HET: FRG; 1.95A {Homo sapiens} SCOP: a.26.1.2 PDB:
1m47_A* 1m49_A* 1m4c_A 1pw6_A* 1z92_A 2b5i_A* 1py2_A*
3ink_C 2erj_D 1qvn_A* 1irl_A 1m4b_A* 1m4a_A* 1nbp_A*
3qb1_A 3qaz_A
Length = 133
Score = 34.2 bits (78), Expect = 0.014
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 15/74 (20%)
Query: 17 KFNVHGMAEEVKHVHGMAEEVKNVHGMAEEVKNVHGIAEEVKNVHGMAEE-VKNVHGMAE 75
KF + A E+KH+ + EE+K + EEV N+ + KN H + + N++ +
Sbjct: 43 KFYMPKKATELKHLQCLEEELKPL----EEVLNL----AQSKNFHLRPRDLISNINVIVL 94
Query: 76 EVK------KCAWD 83
E+K C +
Sbjct: 95 ELKGSETTFMCEYA 108
>2v5o_A Cation-independent mannose-6-phosphate receptor; membrane,
lysosome, transport, beta barrel, phosphorylation,
fibronec II; HET: NAG; 2.91A {Homo sapiens} PDB: 2v5p_A*
2v5n_A*
Length = 627
Score = 33.1 bits (74), Expect = 0.094
Identities = 17/130 (13%), Positives = 33/130 (25%), Gaps = 6/130 (4%)
Query: 90 CAWDGRGGKECAW--DSTGGKECAWDGRGGKECAWDSRGGK----ECAWDGRGGKECAWD 143
++ A G C + G C + EC + R C+
Sbjct: 364 SMKLDYRHQDEAVVLSYVNGDRCPPETDDGVPCVFPFIFNGKSYEECIIESRAKLWCSTT 423
Query: 144 SRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWD 203
+ ++ W S +C D G+ + G + ++ + C
Sbjct: 424 ADYDRDHEWGFCRHSNSYRTSSIIFKCDEDEDIGRPQVFSEVRGCDVTFEWKTKVVCPPK 483
Query: 204 SRGGKECAWD 213
K
Sbjct: 484 KLECKFVQKH 493
Score = 32.7 bits (73), Expect = 0.13
Identities = 17/130 (13%), Positives = 33/130 (25%), Gaps = 6/130 (4%)
Query: 110 CAWDGRGGKECAW--DSRGGKECAWDGRGGKECAWDSRGGK----ECAWDGRGGKECAWD 163
++ A G C + G C + EC + R C+
Sbjct: 364 SMKLDYRHQDEAVVLSYVNGDRCPPETDDGVPCVFPFIFNGKSYEECIIESRAKLWCSTT 423
Query: 164 SRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWD 223
+ ++ W S +C D G+ + G + ++ + C
Sbjct: 424 ADYDRDHEWGFCRHSNSYRTSSIIFKCDEDEDIGRPQVFSEVRGCDVTFEWKTKVVCPPK 483
Query: 224 SRGGKECAWD 233
K
Sbjct: 484 KLECKFVQKH 493
Score = 32.3 bits (72), Expect = 0.15
Identities = 12/85 (14%), Positives = 24/85 (28%)
Query: 89 ECAWDGRGGKECAWDSTGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGK 148
EC + R C+ + ++ W S +C D G+ + G
Sbjct: 409 ECIIESRAKLWCSTTADYDRDHEWGFCRHSNSYRTSSIIFKCDEDEDIGRPQVFSEVRGC 468
Query: 149 ECAWDGRGGKECAWDSRGGKECAWD 173
+ ++ + C K
Sbjct: 469 DVTFEWKTKVVCPPKKLECKFVQKH 493
Score = 32.3 bits (72), Expect = 0.19
Identities = 21/157 (13%), Positives = 44/157 (28%), Gaps = 6/157 (3%)
Query: 55 EEVKNVHGMAEEVKNVHGMAEEVKKCAWDGRGGKECAWDGR--GGKECAWDSTGGKECA- 111
E+ G + G + + ++ A G C ++ G C
Sbjct: 339 EQGGCKDGGVCLLSGTKGASFGRLQSMKLDYRHQDEAVVLSYVNGDRCPPETDDGVPCVF 398
Query: 112 ---WDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGK 168
++G+ +EC +SR C+ ++ W +C D G+
Sbjct: 399 PFIFNGKSYEECIIESRAKLWCSTTADYDRDHEWGFCRHSNSYRTSSIIFKCDEDEDIGR 458
Query: 169 ECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSR 205
+ G + ++ + C K
Sbjct: 459 PQVFSEVRGCDVTFEWKTKVVCPPKKLECKFVQKHKT 495
Score = 31.9 bits (71), Expect = 0.26
Identities = 20/148 (13%), Positives = 42/148 (28%), Gaps = 6/148 (4%)
Query: 130 CAWDGRGGKECAW--DSRGGKECAWDGRGGKECAWDSRGGK----ECAWDGRGGKECAWD 183
++ A G C + G C + EC + R C+
Sbjct: 364 SMKLDYRHQDEAVVLSYVNGDRCPPETDDGVPCVFPFIFNGKSYEECIIESRAKLWCSTT 423
Query: 184 SRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWD 243
+ ++ W S +C D G+ + G + ++ + C
Sbjct: 424 ADYDRDHEWGFCRHSNSYRTSSIIFKCDEDEDIGRPQVFSEVRGCDVTFEWKTKVVCPPK 483
Query: 244 SRGGKDIVSRKIYQCVKIAFKFETYNLK 271
K + K Y ++ +++L
Sbjct: 484 KLECKFVQKHKTYDLRLLSSLTGSWSLV 511
>2oo4_A Notch 2, neurogenic locus notch homolog protein 2, HN2, notch2,
NOTC2; alpha-beta-sandwich, SEA domain, LNR, LIN12 notch
repeat, CY rich, HD domain; 2.00A {Homo sapiens}
Length = 234
Score = 30.2 bits (67), Expect = 0.53
Identities = 21/90 (23%), Positives = 26/90 (28%), Gaps = 13/90 (14%)
Query: 76 EVKKCAWDG---RGGKECAWDGRGGKECAWDSTGGK--------ECAWDGRGGKECAWDS 124
C WDG E W WD + EC +D + +
Sbjct: 23 NSHACQWDGGDCSLTMENPWANCSSPLPCWDYINNQCDELCNTVECLFDNFECQGNSKTC 82
Query: 125 RGGKECAWDGRGGKECAWDSRGGKECAWDG 154
+ K CA D C EC WDG
Sbjct: 83 KYDKYCA-DHFKDNHCNQGCNSE-ECGWDG 110
Score = 30.2 bits (67), Expect = 0.55
Identities = 25/108 (23%), Positives = 32/108 (29%), Gaps = 18/108 (16%)
Query: 93 DGRGGKECAWDSTGGKECAWDG---RGGKECAWDSRGGKECAWDGRGGK---ECAWDSRG 146
DG + C C WDG E W + WD + C
Sbjct: 15 DGVCDEAC-----NSHACQWDGGDCSLTMENPWANCSSPLPCWDYINNQCDELC-----N 64
Query: 147 GKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGKECAWDG 194
EC +D + + + K CA D C EC WDG
Sbjct: 65 TVECLFDNFECQGNSKTCKYDKYCA-DHFKDNHCNQGCNSE-ECGWDG 110
Score = 30.2 bits (67), Expect = 0.55
Identities = 25/108 (23%), Positives = 32/108 (29%), Gaps = 18/108 (16%)
Query: 133 DGRGGKECAWDSRGGKECAWDG---RGGKECAWDSRGGKECAWDGRGGK---ECAWDSRG 186
DG + C C WDG E W + WD + C
Sbjct: 15 DGVCDEAC-----NSHACQWDGGDCSLTMENPWANCSSPLPCWDYINNQCDELC-----N 64
Query: 187 GKECAWDGRGGKECAWDSRGGKECAWDGRGGKECAWDSRGGKECAWDG 234
EC +D + + + K CA D C EC WDG
Sbjct: 65 TVECLFDNFECQGNSKTCKYDKYCA-DHFKDNHCNQGCNSE-ECGWDG 110
>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 = 30.2 bits (67), Expect = 0.96
Identities = 9/75 (12%), Positives = 23/75 (30%), Gaps = 18/75 (24%)
Query: 3 EEVKNVHGMAEEIKKFNVHGMAEEVKHVHGMAEEVKNVHGMAEEVKNVHGIAEEVKNVHG 62
E+ ++ + K+NV + + E++ + + G
Sbjct: 114 EQRDRLYNDNQVFAKYNVS-----------RLQPYLKLRQALLELRPAKNVL-----IDG 157
Query: 63 MAEEVKNVHGMAEEV 77
+ K +A +V
Sbjct: 158 VLGSGKTW--VALDV 170
>2b5u_A Colicin E3; high resolution colicin E3, ribosome inactivation,
ribosome inhibitor, hydrolase; HET: CIT; 2.30A
{Escherichia coli} SCOP: b.101.1.1 b.110.1.1 h.4.9.1
PDB: 1jch_A* 1ujw_B* 2ysu_B 1e44_B 2xfz_Y* 2xg1_Y*
Length = 551
Score = 28.4 bits (62), Expect = 2.6
Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 2/67 (2%)
Query: 65 EEVKNVHGMAEEVKKCAWDGRGGKECAW-DGRGGKECAWDSTGGKECAWDGRGGKE-CAW 122
E +K + + + K GGK W +G K WDS G+ + G+ ++
Sbjct: 471 ENIKGLGDLKPGIPKTPKQNGGGKRKRWTGDKGRKIYEWDSQHGELEGYRASDGQHLGSF 530
Query: 123 DSRGGKE 129
D + G +
Sbjct: 531 DPKTGNQ 537
>2z1m_A GDP-D-mannose dehydratase; short-chain dehydrogenase/reductase,
lyase, structural genom NPPSFA; HET: NDP GDP; 2.00A
{Aquifex aeolicus} PDB: 2z95_A*
Length = 345
Score = 26.8 bits (60), Expect = 8.1
Identities = 10/25 (40%), Positives = 11/25 (44%)
Query: 227 GKECAWDGRGGKECAWDSRGGKDIV 251
G + W G G E D GK IV
Sbjct: 265 GFDIEWVGEGINEKGIDRNTGKVIV 289
>1t2a_A GDP-mannose 4,6 dehydratase; structural genomics consortium,
rossman-fold, short-chain dehydrogenase/reductase, SDR,
structural genomics,lyase; HET: NDP GDP; 1.84A {Homo
sapiens} SCOP: c.2.1.2
Length = 375
Score = 26.5 bits (59), Expect = 9.3
Identities = 8/25 (32%), Positives = 10/25 (40%)
Query: 227 GKECAWDGRGGKECAWDSRGGKDIV 251
GK W+G+ E GK V
Sbjct: 294 GKTIVWEGKNENEVGRCKETGKVHV 318
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
0.315 0.136 0.477
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,734,138
Number of extensions: 309408
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 375
Number of HSP's successfully gapped: 30
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.2 bits)