BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 035622
(117 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EUV|A Chain A, X-Ray Structure Of The C-Terminal Ulp1 Protease Domain In
Complex With Smt3, The Yeast Ortholog Of Sumo
Length = 221
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 26/92 (28%)
Query: 19 KIPADKMGKPFGFMNLVTAHWILVVIDVAAKTGYFMDPQGNSPA---------------E 63
K DK+ K F +NL +HW L +ID+ KT ++D N P E
Sbjct: 95 KTQIDKLDKIFTPINLNQSHWALGIIDLKKKTIGYVDSLSNGPNAMSFAILTDLQKYVME 154
Query: 64 HIKELV-----------PKQPGSYECGYYVML 84
K + P+QP Y+CG YV +
Sbjct: 155 ESKHTIGEDFDLIHLDCPQQPNGYDCGIYVCM 186
>pdb|2HKP|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfenic Acid
pdb|2HL8|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfinic Acid
pdb|2HL9|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfonic Acid
Length = 221
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 37/92 (40%), Gaps = 26/92 (28%)
Query: 19 KIPADKMGKPFGFMNLVTAHWILVVIDVAAKTGYFMDPQGNSPA---------------E 63
K DK+ K F +NL +HW L +ID+ KT ++D N P E
Sbjct: 95 KTQIDKLDKIFTPINLNQSHWALGIIDLKKKTIGYVDSLSNGPNAMSFAILTDLQKYVME 154
Query: 64 HIKELV-----------PKQPGSYECGYYVML 84
K + P+QP Y+ G YV +
Sbjct: 155 ESKHTIGEDFDLIHLDCPQQPNGYDXGIYVCM 186
>pdb|3EAY|A Chain A, Crystal Structure Of The Human Senp7 Catalytic Domain
Length = 323
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 69 VPKQPGSYECGYYVMLYMRDIIVDP 93
VPKQ S +CG Y++ Y+ DP
Sbjct: 256 VPKQDNSSDCGVYLLQYVESFFKDP 280
>pdb|1XT9|A Chain A, Crystal Structure Of Den1 In Complex With Nedd8
Length = 212
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 46 VAAKTGYFMDPQGNSPAEHIKELVPKQPGSYECGYYVM 83
VA K F+ +G+ A ++E P Q SY+CG YV+
Sbjct: 132 VAEKLEAFLGRKGDKLA-FVEEKAPAQQNSYDCGMYVI 168
>pdb|2BKQ|A Chain A, Nedd8 Protease
pdb|2BKQ|B Chain B, Nedd8 Protease
pdb|2BKQ|C Chain C, Nedd8 Protease
pdb|2BKQ|D Chain D, Nedd8 Protease
pdb|2BKR|A Chain A, Nedd8 Nedp1 Complex
Length = 212
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 46 VAAKTGYFMDPQGNSPAEHIKELVPKQPGSYECGYYVM 83
VA K F+ +G+ A ++E P Q SY+CG YV+
Sbjct: 132 VAEKLEAFLGRKGDKLA-FVEEKAPAQQNSYDCGMYVI 168
>pdb|3CMI|A Chain A, Crystal Structure Of Glutathione-Dependent Phospholipid
Peroxidase Hyr1 From The Yeast Saccharomyces Cerevisiae
Length = 171
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 13 MVCLYDKIPADKMGKPFGFMNLVTAHWILVVIDVAAKTGY 52
M Y P DK G+PF F L ++++++VA+K G+
Sbjct: 9 MSEFYKLAPVDKKGQPFPFDQLKGK--VVLIVNVASKCGF 46
>pdb|2EX1|A Chain A, Crystal Structure Of Mutifunctional Sialyltransferase From
Pasteurella Multocida With Cmp Bound
Length = 399
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 13/60 (21%), Positives = 31/60 (51%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L A +D V +++N
Sbjct: 54 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFAHLDRVSIQQLN 113
>pdb|3K7A|M Chain M, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|4BBR|M Chain M, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|M Chain M, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 345
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 62 AEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLN 98
A + + + G+ + GY ++ RD +VDP L+ N
Sbjct: 295 AAKVGQTLQVTEGTIKSGYKILYEHRDKLVDPQLIAN 331
>pdb|4EX4|A Chain A, The Structure Of Glcb From Mycobacterium Leprae
pdb|4EX4|B Chain B, The Structure Of Glcb From Mycobacterium Leprae
Length = 735
Score = 26.6 bits (57), Expect = 3.3, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 2/65 (3%)
Query: 49 KTGYFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMR--DIIVDPSLLLNNAEMDEVR 106
KTG P NS I + PK G E + L+ R D++ P L MDE R
Sbjct: 386 KTGEANGPLTNSRTGSIYIVKPKMHGPAEVAFTCELFSRVEDVLGLPQGTLKVGIMDEER 445
Query: 107 YERMN 111
+N
Sbjct: 446 RTTLN 450
>pdb|3OMB|A Chain A, Crystal Structure Of Extracellular Solute-Binding Protein
From Bifidobacterium Longum Subsp. Infantis
Length = 535
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 11/45 (24%)
Query: 55 DPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNN 99
DP GN A+ I + K GSY Y P LLLN+
Sbjct: 199 DPNGNGQADEIPXNIKKLEGSYFTWY-----------SPXLLLNS 232
>pdb|2C83|A Chain A, Crystal Structure Of The Sialyltransferase Pm0188
Length = 391
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 12/60 (20%), Positives = 30/60 (50%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L +D V +++N
Sbjct: 54 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFKHLDRVSIQQLN 113
>pdb|2C84|A Chain A, Crystal Structure Of The Sialyltransferase Pm0188 With Cmp
pdb|2IY8|A Chain A, Crystal Structure Of The Sialyltransferase Pm0188 With
Cmp- 3fneuac And Lactose
pdb|2IY7|A Chain A, Crystal Structure Of The Sialyltransferase Pm0188 With
Cmp- 3fneuac
Length = 389
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 12/60 (20%), Positives = 30/60 (50%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L +D V +++N
Sbjct: 54 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFKHLDRVSIQQLN 113
>pdb|3S44|A Chain A, Crystal Structure Of Pasteurella Multocida
Sialyltransferase M144d Mutant With Cmp Bound
Length = 399
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 12/60 (20%), Positives = 30/60 (50%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L +D V +++N
Sbjct: 54 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFKHLDRVSIQQLN 113
>pdb|2II6|A Chain A, Crystal Structure Of Pasteurella Multocida
Sialyltransferase D141n Mutant In Open Conformation With
Cmp Bound
pdb|2IIB|A Chain A, Crystal Structure Of Pasteurella Multocida
Sialyltransferase D141n Mutant With Cmp Bound
Length = 399
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 12/60 (20%), Positives = 30/60 (50%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L +D V +++N
Sbjct: 54 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFKHLDRVSIQQLN 113
>pdb|2EX0|A Chain A, Crystal Structure Of Multifunctional Sialyltransferase
From Pasteurella Multocida
pdb|2EX0|B Chain B, Crystal Structure Of Multifunctional Sialyltransferase
From Pasteurella Multocida
pdb|2IHJ|A Chain A, Crystal Structure Of Multifunctional Sialyltransferase
From Pasteurella Multocida With Cmp-3f-Neu5ac Bound
pdb|2IHK|A Chain A, Crystal Structure Of Multifunctional Sialyltransferase
From Pasteurella Multocida With
Cmp-3f(Equatorial)-Neu5ac Bound
pdb|2IHZ|A Chain A, Crystal Structure Of Multifunctional Sialyltransferase
From Pasteurella Multocida With Cmp-3f-Neu5ac And
Alpha-Lactose Bound
pdb|2IIQ|A Chain A, Crystal Structure Of Pasteurella Multocida
Sialyltransferase In An Open Conformation With Cmp Bound
pdb|2IIQ|B Chain B, Crystal Structure Of Pasteurella Multocida
Sialyltransferase In An Open Conformation With Cmp Bound
Length = 399
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 12/60 (20%), Positives = 30/60 (50%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L +D V +++N
Sbjct: 54 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFKHLDRVSIQQLN 113
>pdb|2ILV|A Chain A, Crystal Structure Of Multifunctional Sialyltransferase
From Pasteurella Multocida With Cmp And Alpha-lactose
Bound
Length = 400
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 12/60 (20%), Positives = 30/60 (50%)
Query: 52 YFMDPQGNSPAEHIKELVPKQPGSYECGYYVMLYMRDIIVDPSLLLNNAEMDEVRYERMN 111
+F++ + N P E + ++ + PG+ E ++ + ++ P L +D V +++N
Sbjct: 55 HFVELKDNRPTEALFTILDQYPGNIELNIHLNIAHSVQLIRPILAYRFKHLDRVSIQQLN 114
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.325 0.142 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,959,465
Number of Sequences: 62578
Number of extensions: 155640
Number of successful extensions: 412
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 20
length of query: 117
length of database: 14,973,337
effective HSP length: 80
effective length of query: 37
effective length of database: 9,967,097
effective search space: 368782589
effective search space used: 368782589
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)