RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8882
(204 letters)
>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring
domain, structural GE consortium, SGC; 2.39A {Homo
sapiens} PDB: 2asq_B
Length = 360
Score = 83.5 bits (205), Expect = 3e-19
Identities = 48/152 (31%), Positives = 70/152 (46%), Gaps = 15/152 (9%)
Query: 53 MANPAPLGPKLPDRHPAVKFKVLPFFDMKHELIPISSLQPTNTSSRNQEVSFQFKLTNQQ 112
M + + + + K LPF+D+ LI +SL ++ R QE F F LT QQ
Sbjct: 1 MHHHHHHSSGRENLYFQGQLKNLPFYDVLDVLIKPTSLVQSS-IQRFQEKFFIFALTPQQ 59
Query: 113 AAELGENREIIPGVRNDWHYQRTHCAIFSLILYPQVQLRIASLNTTTEQDDHYPPNLAIK 172
E+ +R+ +PG R D+ Q VQLR+ T+ Q+D+YP +L IK
Sbjct: 60 VREICISRDFLPGGRRDYTVQ--------------VQLRLCLAETSCPQEDNYPNSLCIK 105
Query: 173 VNQRAVQLPNPIPSRVQNKEPIRPSRLIEETN 204
VN + LP P E RP R + T+
Sbjct: 106 VNGKLFPLPGYAPPPKNGIEQKRPGRPLNITS 137
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring
E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A
{Saccharomyces cerevisiae}
Length = 371
Score = 58.8 bits (141), Expect = 1e-10
Identities = 24/185 (12%), Positives = 49/185 (26%), Gaps = 26/185 (14%)
Query: 12 QQQQKQAQMAQQAAVLSLQQQNHGNMYQAGGASIPHYYMRPMANPAPLGPKLPDRHPAVK 71
+ + QQ + ++Q + +S P NP P +
Sbjct: 10 VRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAP--PPTNPDASSSSSSFAVPTIH 67
Query: 72 FKVLPFFDMKHELIPISSLQPTNTSSRNQEVSFQFKLTNQQAAELGENREIIPGVRNDWH 131
FK PF+ ++ + + + + S +FKL+ L
Sbjct: 68 FKESPFYKIQRLIPEL--VMNVEVTGGRGMCSAKFKLSKADYNLLSNPNS---------- 115
Query: 132 YQRTHCAIFSLILYPQVQLRIASLNTTTEQDDHYPPNLAIKVNQRAVQLPNPIPSRVQNK 191
LY I L + + +P ++ N ++
Sbjct: 116 ---------KHRLY-LFSGMINPLGSRGNEPIQFPFPNELRCNNVQIKDNIRGFK--SKP 163
Query: 192 EPIRP 196
+P
Sbjct: 164 GTAKP 168
>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 = 28.5 bits (63), Expect = 2.1
Identities = 19/133 (14%), Positives = 35/133 (26%), Gaps = 56/133 (42%)
Query: 82 HELIPISSLQPTNTSSRNQEVSFQFKLTNQQAAELGENREIIP----GVRNDWHYQRTHC 137
+E P +SL P+ + + E E +P + N
Sbjct: 311 YEAYPNTSLPPSIL---------------EDSLENNEG---VPSPMLSISN--------- 343
Query: 138 AIFSLILYPQVQLRIASLNTTTEQDDH----------------YPPNL-AIKVNQRAVQL 180
+ QVQ + N+ P +L + + R +
Sbjct: 344 -----LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKA 398
Query: 181 PNPIPSRVQNKEP 193
P Q++ P
Sbjct: 399 P---SGLDQSRIP 408
>1yc9_A VCEC, multidrug resistance protein; outer membrane protein,
multidrug resistanc membrane protein; HET: BOG; 1.80A
{Vibrio cholerae}
Length = 442
Score = 28.1 bits (63), Expect = 2.4
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 7 YSQRLQQQQKQAQMAQQAAVLSLQQQNHGNMYQAGGAS 44
R+ + ++ Q A+QA ++ + YQ G A+
Sbjct: 366 LQARINKTEQAVQQAEQALHIATNR------YQGGLAT 397
>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt
pseudomonas, protein binding; 2.50A {Pseudomonas
fluorescens}
Length = 452
Score = 26.6 bits (59), Expect = 5.8
Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 2/46 (4%)
Query: 6 YYSQRLQQQQKQAQMAQQAAVL--SLQQQNHGNMYQAGGASIPHYY 49
R Q KQA+ +AA Q G + A + +
Sbjct: 45 QVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEH 90
>3s8f_A Cytochrome C oxidase subunit 1; complex IV, respiratory chain,
lipid cubic phase, monoolein, peroxide, electron
transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus
thermophilus} PDB: 3s8g_A* 1xme_A* 3qjq_A* 3qjr_A*
3qju_A* 3qjv_A* 4esl_A* 3qjs_A* 2qpd_A* 3bvd_A* 2qpe_A*
3qjt_A* 1ehk_A* 3eh5_A* 3eh3_A* 3eh4_A*
Length = 569
Score = 26.6 bits (59), Expect = 5.9
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 67 HPAVKFKVLPFFDMKHELIP 86
HP V F +LP + + + ++P
Sbjct: 240 HPIVYFWLLPAYAIIYTILP 259
>2yev_A Cytochrome C oxidase polypeptide I+III; electron transport; HET:
FME 5PL HAS 4AG 7E8 HEC 7E9; 2.36A {Thermus
thermophilus}
Length = 791
Score = 26.7 bits (59), Expect = 7.2
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 67 HPAVKFKVLPFFDMKHELIPISSLQP 92
HP V +LP+ + E+ + +P
Sbjct: 250 HPTVYVMLLPYLGILAEVASTFARKP 275
>1fft_A Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: f.24.1.1
Length = 663
Score = 26.2 bits (58), Expect = 8.7
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 67 HPAVKFKVLPFFDMKHELIPISSLQP 92
HP V +LP F + E+ S +
Sbjct: 284 HPEVYILILPVFGVFSEIAATFSRKR 309
>2cfo_A Glutamyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase,
ATP-binding, nucleotide-B; HET: GLU; 2.45A
{Synechococcus elongatus}
Length = 492
Score = 26.0 bits (58), Expect = 9.6
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 7/38 (18%)
Query: 36 NMYQAGGASIPHYYMRPMANPAPLGP---KLPDRHPAV 70
+Y+A GA+ P++ P+ L KL R
Sbjct: 222 LLYEALGATPPNFAHTPLI----LNSTGQKLSKRDGVT 255
>2o5r_A Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, glutamate-T ligase
1, glurs 1, structural genomics, joint center for ST
genomics, JCSG; 2.34A {Thermotoga maritima}
Length = 481
Score = 26.0 bits (58), Expect = 9.9
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 7/40 (17%)
Query: 34 HGNMYQAGGASIPHYYMRPMANPAPLGP---KLPDRHPAV 70
+Y+A + P + LGP KL RH A
Sbjct: 235 QLALYEAFEKAPPVFAHVSTI----LGPDGKKLSKRHGAT 270
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
0.317 0.131 0.385
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: 2,890,171
Number of extensions: 150942
Number of successful extensions: 308
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 18
Length of query: 204
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 115
Effective length of database: 4,216,824
Effective search space: 484934760
Effective search space used: 484934760
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: 41 (21.7 bits)
S2: 55 (24.9 bits)