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= 019932
(334 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H3I|A Chain A, Crystal Structure Of The Histone Methyltransferase Set79
pdb|1H3I|B Chain B, Crystal Structure Of The Histone Methyltransferase Set79
Length = 293
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 1/81 (1%)
Query: 211 FYSNGDFYEGEFHKGKSNGSGVYNFFVNGRYEGEWIDGKYDGYGIESWARGSR-YKGQYR 269
F+ +G EG + G GVY + G +G ++DG+ +G E G +KGQY+
Sbjct: 1 FFFDGSTLEGYYVDDALQGQGVYTYEDGGVLQGTYVDGELNGPAQEYDTDGRLIFKGQYK 60
Query: 270 QGLRHGYGVYRFYTGDSYAGQ 290
+RHG + G S G+
Sbjct: 61 DNIRHGVCWIYYPDGGSLVGE 81
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 261 GSRYKGQYRQGLRHGYGVYRFYTGDSYAGQWCNGQSHGIGVQTCADGS-SYVGEFKCGVK 319
GS +G Y G GVY + G G + +G+ +G + DG + G++K ++
Sbjct: 5 GSTLEGYYVDDALQGQGVYTYEDGGVLQGTYVDGELNGPAQEYDTDGRLIFKGQYKDNIR 64
Query: 320 HGLGFYHF 327
HG+ + ++
Sbjct: 65 HGVCWIYY 72
>pdb|1MT6|A Chain A, Structure Of Histone H3 K4-Specific Methyltransferase
Set79 WITH ADOHCY
Length = 280
Score = 35.8 bits (81), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 219 EGEFHKGKSNGSGVYNFFVNGRYEGEWIDGKYDGYGIESWARGSR-YKGQYRQGLRHGYG 277
EG + G GVY + G +G ++DG+ +G E G +KGQY+ +RHG
Sbjct: 3 EGYYVDDALQGQGVYTYEDGGVLQGTYVDGELNGPAQEYDTDGRLIFKGQYKDNIRHGVC 62
Query: 278 VYRFYTGDSYAGQ 290
+ G S G+
Sbjct: 63 WIYYPDGGSLVGE 75
>pdb|1N6C|A Chain A, Structure Of Set79
Length = 297
Score = 35.0 bits (79), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 229 GSGVYNFFVNGRYEGEWIDGKYDGYGIESWARGSR-YKGQYRQGLRHGYGVYRFYTGDSY 287
G GVY + G +G ++DG+ +G E G +KGQY+ +RHG + G S
Sbjct: 1 GQGVYTYEDGGVLQGTYVDGELNGPAQEYDTDGRLIFKGQYKDNIRHGVCWIYYPDGGSL 60
Query: 288 AGQ 290
G+
Sbjct: 61 VGE 63
>pdb|3FGQ|A Chain A, Crystal Structure Of Native Human Neuroserpin
pdb|3FGQ|B Chain B, Crystal Structure Of Native Human Neuroserpin
Length = 397
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 211 FYSNGDFYEGEFHKGKSNGSGVYNFFVNGRYEGEWI 246
Y G+FY GEF G + G+Y + YEG+ I
Sbjct: 214 MYQQGEFYYGEFSDGSNEAGGIYQ-VLEIPYEGDEI 248
>pdb|3F5N|A Chain A, Structure Of Native Human Neuroserpin
pdb|3F5N|B Chain B, Structure Of Native Human Neuroserpin
pdb|3F5N|C Chain C, Structure Of Native Human Neuroserpin
pdb|3F5N|D Chain D, Structure Of Native Human Neuroserpin
pdb|3F5N|E Chain E, Structure Of Native Human Neuroserpin
Length = 407
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 211 FYSNGDFYEGEFHKGKSNGSGVYNFFVNGRYEGEWI 246
Y G+FY GEF G + G+Y + YEG+ I
Sbjct: 214 MYQQGEFYYGEFSDGSNEAGGIYQ-VLEIPYEGDEI 248
>pdb|1GC1|H Chain H, Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing
Human Antibody
Length = 229
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 221 EFHKGKSNGSGVYNFFVNGRYEGEWIDGKYDGYG-IESWARGS 262
E +S+ + VY F G YEGE +G+YD G ++ W +G+
Sbjct: 82 ELRNLRSDDTAVY--FCAGVYEGEADEGEYDNNGFLKHWGQGT 122
>pdb|1MUF|A Chain A, Structure Of Histone H3 K4-Specific Methyltransferase
Set79
Length = 257
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 242 EGEWIDGKYDGYGIESWARGSR-YKGQYRQGLRHGYGVYRFYTGDSYAGQ 290
+G ++DG+ +G E G +KGQY+ +RHG + G S G+
Sbjct: 3 QGTYVDGELNGPAQEYDTDGRLIFKGQYKDNIRHGVCWIYYPDGGSLVGE 52
>pdb|3F02|A Chain A, Cleaved Human Neuroserpin
pdb|3F02|B Chain B, Cleaved Human Neuroserpin
Length = 359
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 211 FYSNGDFYEGEFHKGKSNGSGVYNFFVNGRYEGEWI 246
Y G+FY GEF G + G+Y + YEG+ I
Sbjct: 214 MYQQGEFYYGEFSDGSNEAGGIYQ-VLEIPYEGDEI 248
>pdb|1JJO|C Chain C, Crystal Structure Of Mouse Neuroserpin (Cleaved Form)
pdb|1JJO|D Chain D, Crystal Structure Of Mouse Neuroserpin (Cleaved Form)
Length = 261
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 211 FYSNGDFYEGEFHKGKSNGSGVYNFFVNGRYEGEWI 246
Y G+FY GEF G + G+Y + YEG+ I
Sbjct: 117 MYQQGEFYYGEFSDGSNEAGGIYQ-VLEIPYEGDEI 151
>pdb|1RZ8|B Chain B, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZ8|D Chain D, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
Length = 228
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 221 EFHKGKSNGSGVYNFFVNGRYEGEWIDGKYDGYG-IESWARGS 262
E +S+ + VY F G YEGE +G+YD G ++ W +G+
Sbjct: 82 ELRNLRSDDTAVY--FCAGVYEGEADEGEYDNNGFLKHWGQGT 122
>pdb|1RZJ|H Chain H, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|H Chain H, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1YYL|H Chain H, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYL|R Chain R, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYM|H Chain H, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|1YYM|R Chain R, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|H Chain H, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|R Chain R, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|H Chain H, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|R Chain R, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2NXY|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
pdb|2NXZ|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
pdb|2NY0|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
pdb|2NY1|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (I109c, T257s, S334a,
S375w, Q428c) Complexed With Cd4 And Antibody 17b
pdb|2NY2|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (T123c, T257s, S334a,
S375w, G431c) Complexed With Cd4 And Antibody 17b
pdb|2NY3|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E267c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY4|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E268c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY5|H Chain H, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T257s, V275c, S334a, S375w, Q428c, A433m) Complexed With
Cd4 And Antibody 17b
pdb|2NY6|D Chain D, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T123c, T257s, V275c,s334a, S375w, Q428c, G431c)
Complexed With Cd4 And Antibody 17b
Length = 229
Score = 27.7 bits (60), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 221 EFHKGKSNGSGVYNFFVNGRYEGEWIDGKYDGYG-IESWARGS 262
E +S+ + VY F G YEGE +G+YD G ++ W +G+
Sbjct: 82 ELRNLRSDDTAVY--FCAGVYEGEADEGEYDNNGFLKHWGQGT 122
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
0.319 0.137 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,696,588
Number of Sequences: 62578
Number of extensions: 358302
Number of successful extensions: 554
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 534
Number of HSP's gapped (non-prelim): 24
length of query: 334
length of database: 14,973,337
effective HSP length: 99
effective length of query: 235
effective length of database: 8,778,115
effective search space: 2062857025
effective search space used: 2062857025
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)