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= 011389
(487 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 51/99 (51%), Gaps = 3/99 (3%)
Query: 118 RSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEA 177
R++ + F + Y + D V + P + N +P++ I+ + + G + G WFYRP E
Sbjct: 14 RTYSQDCSFKNSMYHVGDYVYVEPAEANLQPHIVCIERLWEDSAGEKWLYGCWFYRPNET 73
Query: 178 DRKGGGNWLSRDTRELFYSFHRDEVPAESVMHKCVVHFV 216
+L +E+F S + ++VP ++ KCVV FV
Sbjct: 74 FHLATRKFLE---KEVFKSDYYNKVPVSKILGKCVVMFV 109
>pdb|2DME|A Chain A, Solution Structure Of The Tfiis Domain Ii Of Human Phd
Finger Protein 3
Length = 120
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 439 KYNQKLRQLLFNLK--STALLARRLLNGELEPSKILNMSPNELKVLYCPSW 487
KY K R L+FNLK +L +++L GE+ P ++ MSP EL +W
Sbjct: 61 KYKNKYRSLMFNLKDPKNNILFKKVLKGEVTPDHLIRMSPEELASKELAAW 111
>pdb|3PT6|A Chain A, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
pdb|3PT6|B Chain B, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
Length = 954
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%)
Query: 118 RSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWF 171
R++Y+ D E+ D V + P+D+++ Y+A + + + K+G MM WF
Sbjct: 99 RTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHWF 152
>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1
pdb|3AV5|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adohcy
pdb|3AV6|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adomet
Length = 1330
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%)
Query: 118 RSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWF 171
R++Y+ D E+ D V + P+D+++ Y+A + + + K+G MM WF
Sbjct: 457 RTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHWF 510
>pdb|3PT9|A Chain A, Crystal Structure Of Mouse Dnmt1(731-1602) In The Free
State
pdb|4DA4|A Chain A, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
pdb|4DA4|B Chain B, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
Length = 873
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%)
Query: 118 RSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWF 171
R++Y+ D E+ D V + P+D+++ Y+A + + + K+G MM WF
Sbjct: 18 RTYYQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHWF 71
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 104 VGELVRFSGKGRGRRSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGS 163
VGE V+ GK +S+Y+ D E+ D V + P+D+++ Y+A + + +
Sbjct: 136 VGEAVKTDGK----KSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNG 191
Query: 164 MMVTGQWF 171
M WF
Sbjct: 192 QMFHAHWF 199
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 36.6 bits (83), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 104 VGELVRFSGKGRGRRSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGS 163
VGE V+ GK +S+Y+ D E+ D V + P+D+++ Y+A + + +
Sbjct: 90 VGEAVKTDGK----KSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNG 145
Query: 164 MMVTGQWF 171
M WF
Sbjct: 146 QMFHAHWF 153
>pdb|1J2W|A Chain A, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|B Chain B, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|C Chain C, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|D Chain D, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1UB3|A Chain A, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|B Chain B, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|C Chain C, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|D Chain D, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
Length = 220
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 57/135 (42%), Gaps = 10/135 (7%)
Query: 259 EIDLLVQKTQARLGDLPDIEPEETAAREQEDQLKAKRSLRKKNISPLDVSREEDSTTRSD 318
E+D+++ +A+ GDL +E E A RE Q K L SP +++R ++ R
Sbjct: 87 EVDMVLHLGRAKAGDLDYLEAEVRAVREAVPQAVLKVILETGYFSPEEIARLAEAAIRGG 146
Query: 319 Q-YVKAETPGSCTSNASEYYNIL-------SKFKALTGETHRDKWLERLLQGLQYICNSA 370
++K T + E +L ++ KA G R+ L L G + S+
Sbjct: 147 ADFLKTSTGFGPRGASLEDVALLVRVAQGRAQVKAAGGIRDRETALRMLKAGASRLGTSS 206
Query: 371 DSIHADQNGKGGCKG 385
A G+GG G
Sbjct: 207 GV--ALVAGEGGTLG 219
>pdb|2BPD|A Chain A, Structure Of Murine Dectin-1
pdb|2BPD|B Chain B, Structure Of Murine Dectin-1
Length = 142
Score = 30.0 bits (66), Expect = 3.2, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 155 EITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELF-YSFH-RDEVPAESVMHKCV 212
E +S+ S + W + + G W D F SF R+ VP ES++H CV
Sbjct: 62 EFIESQTSSHRINAFWI---GLSRNQSEGPWFWEDGSAFFPNSFQVRNAVPQESLLHNCV 118
Query: 213 -VHFVPIHKQLPNRKQH 228
+H ++ Q+ N +
Sbjct: 119 WIHGSEVYNQICNTSSY 135
>pdb|2BPE|A Chain A, Structure Of Murine Dectin-1
pdb|2BPE|B Chain B, Structure Of Murine Dectin-1
pdb|2BPH|A Chain A, Structure Of Murine Dectin-1
pdb|2BPH|B Chain B, Structure Of Murine Dectin-1
Length = 140
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 155 EITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELF-YSFH-RDEVPAESVMHKCV 212
E +S+ S + W + + G W D F SF R+ VP ES++H CV
Sbjct: 53 EFIESQTSSHRINAFWI---GLSRNQSEGPWFWEDGSAFFPNSFQVRNAVPQESLLHNCV 109
Query: 213 -VHFVPIHKQLPNRKQH 228
+H ++ Q+ N +
Sbjct: 110 WIHGSEVYNQICNTSSY 126
>pdb|2CL8|A Chain A, Dectin-1 In Complex With Beta-Glucan
pdb|2CL8|B Chain B, Dectin-1 In Complex With Beta-Glucan
Length = 139
Score = 30.0 bits (66), Expect = 3.4, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 155 EITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELF-YSFH-RDEVPAESVMHKCV 212
E +S+ S + W + + G W D F SF R+ VP ES++H CV
Sbjct: 52 EFIESQTSSHRINAFWI---GLSRNQSEGPWFWEDGSAFFPNSFQVRNAVPQESLLHNCV 108
Query: 213 -VHFVPIHKQLPNRKQH 228
+H ++ Q+ N +
Sbjct: 109 WIHGSEVYNQICNTSSY 125
>pdb|3B5X|A Chain A, Crystal Structure Of Msba From Vibrio Cholerae
pdb|3B5X|B Chain B, Crystal Structure Of Msba From Vibrio Cholerae
Length = 582
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 4/121 (3%)
Query: 321 VKAE-TPGSCTSNASEYYNILSKFKALTGETHRDKWLERLLQGLQYICNSADSIHADQNG 379
++AE TPG+ T S + ++ KALT T +R + Q + D NG
Sbjct: 275 IRAELTPGTFTVVFSAMFGLMRPLKALTSVTSE---FQRGMAACQTLFGLMDLETERDNG 331
Query: 380 KGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTALEKASHDTLSLDFQK 439
K + V+ E + K V +EK + SF P A+ + T++ F +
Sbjct: 332 KYEAERVNGEVDVKDVTFTYQGKEKPALSHVSFSIPQGKTVALVGRSGSGKSTIANLFTR 391
Query: 440 Y 440
+
Sbjct: 392 F 392
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 286 EQEDQLKAKRSLRKKNISPLDVSREEDSTTRSDQYVKAETPGSCTS------------NA 333
EQE Q A LRK +S LDV TR D+ ++ PGS + N
Sbjct: 115 EQESQ--AAYLLRKHEVSRLDVVNFISHGTRKDEPTQSSDPGSQPNSEEQAGGEERLENF 172
Query: 334 SEYYNILSKFKALTGETHRDKWLERLLQGL 363
+ N L++ + R+K LER +Q L
Sbjct: 173 TTNLNQLARVGGIDPLIGREKELERAIQVL 202
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
0.312 0.130 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,893,000
Number of Sequences: 62578
Number of extensions: 581618
Number of successful extensions: 914
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 904
Number of HSP's gapped (non-prelim): 15
length of query: 487
length of database: 14,973,337
effective HSP length: 103
effective length of query: 384
effective length of database: 8,527,803
effective search space: 3274676352
effective search space used: 3274676352
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)