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= 041109
(467 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NPP|B Chain B, Structure Of The Protein Phosphatase 2a Holoenzyme
pdb|2NPP|E Chain E, Structure Of The Protein Phosphatase 2a Holoenzyme
Length = 449
Score = 301 bits (771), Expect = 5e-82, Method: Compositional matrix adjust.
Identities = 158/412 (38%), Positives = 243/412 (58%), Gaps = 8/412 (1%)
Query: 46 PYDSEKEEILSAISICNTIFTF-TDPSESPEQQDLKRFKLLQLLSITKSPKKQLDDYILS 104
P D EK + + C +F F +DP + +++KR L +++ + + + I
Sbjct: 35 PADQEKL-FIQKLRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYP 93
Query: 105 HLISMISANLFRPLPPPISTPITGDL-PEDEELFSSPQPLWPHLQIVYDILLRLVLHVD- 162
++ M + N+FR LPP S P + PE++E + + WPHLQ+VY+ LR + D
Sbjct: 94 EVVHMFAVNMFRTLPPS-SNPTGAEFDPEEDE--PTLEAAWPHLQLVYEFFLRFLESPDF 150
Query: 163 -PKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQ 221
P + YID +F+ LL LF SED RERD LK HRIY KF R+++RK +N++F +
Sbjct: 151 QPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYR 210
Query: 222 YNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYC 281
+ +ETE H GI ELLEI GSIINGF +PLKEEHK+FL++VL+PLHK K + YH QLAYC
Sbjct: 211 FIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYC 270
Query: 282 VSQFVQKEPALGGLVARGILKYWPVTNCRKXXXXXXXXXXXXDSIDPAQYRRLALPLCTK 341
V QF++K+ L V +LKYWP T+ K D I+P+++ ++ PL +
Sbjct: 271 VVQFLEKDSTLTEPVVMALLKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIMEPLFRQ 330
Query: 342 ITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLT 401
+ KC++S + +VAERALY WNNE + ++S + + P++ + +N K HW+K++ L
Sbjct: 331 LAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSKTHWNKTIHGLI 390
Query: 402 ENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRKEKWRRIETLAAAKKQ 453
N + +M+ L+ C + + + + + +R+E W +IE LA A Q
Sbjct: 391 YNALKLFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENLAKANPQ 442
>pdb|2IAE|B Chain B, Crystal Structure Of A Protein Phosphatase 2a (Pp2a)
Holoenzyme.
pdb|2IAE|E Chain E, Crystal Structure Of A Protein Phosphatase 2a (Pp2a)
Holoenzyme
Length = 407
Score = 296 bits (758), Expect = 2e-80, Method: Compositional matrix adjust.
Identities = 155/406 (38%), Positives = 240/406 (59%), Gaps = 8/406 (1%)
Query: 46 PYDSEKEEILSAISICNTIFTF-TDPSESPEQQDLKRFKLLQLLSITKSPKKQLDDYILS 104
P D EK + + C +F F +DP + +++KR L +++ + + + I
Sbjct: 6 PADQEKL-FIQKLRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYP 64
Query: 105 HLISMISANLFRPLPPPISTPITGDL-PEDEELFSSPQPLWPHLQIVYDILLRLVLHVD- 162
++ M + N+FR LPP S P + PE++E + + WPHLQ+VY+ LR + D
Sbjct: 65 EVVHMFAVNMFRTLPPS-SNPTGAEFDPEEDE--PTLEAAWPHLQLVYEFFLRFLESPDF 121
Query: 163 -PKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQ 221
P + YID +F+ LL LF SED RERD LK HRIY KF R+++RK +N++F +
Sbjct: 122 QPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYR 181
Query: 222 YNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYC 281
+ +ETE H GI ELLEI GSIINGF +PLKEEHK+FL++VL+PLHK K + YH QLAYC
Sbjct: 182 FIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYC 241
Query: 282 VSQFVQKEPALGGLVARGILKYWPVTNCRKXXXXXXXXXXXXDSIDPAQYRRLALPLCTK 341
V QF++K+ L V +LKYWP T+ K D I+P+++ ++ PL +
Sbjct: 242 VVQFLEKDSTLTEPVVMALLKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIMEPLFRQ 301
Query: 342 ITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLT 401
+ KC++S + +VAERALY WNNE + ++S + + P++ + +N K HW+K++ L
Sbjct: 302 LAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSKTHWNKTIHGLI 361
Query: 402 ENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRKEKWRRIETL 447
N + +M+ L+ C + + + + + +R+E W +IE L
Sbjct: 362 YNALKLFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENL 407
>pdb|3FGA|B Chain B, Structural Basis Of Pp2a And Sgo Interaction
Length = 403
Score = 296 bits (758), Expect = 2e-80, Method: Compositional matrix adjust.
Identities = 155/406 (38%), Positives = 240/406 (59%), Gaps = 8/406 (1%)
Query: 46 PYDSEKEEILSAISICNTIFTF-TDPSESPEQQDLKRFKLLQLLSITKSPKKQLDDYILS 104
P D EK + + C +F F +DP + +++KR L +++ + + + I
Sbjct: 2 PADQEKL-FIQKLRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYP 60
Query: 105 HLISMISANLFRPLPPPISTPITGDL-PEDEELFSSPQPLWPHLQIVYDILLRLVLHVD- 162
++ M + N+FR LPP S P + PE++E + + WPHLQ+VY+ LR + D
Sbjct: 61 EVVHMFAVNMFRTLPPS-SNPTGAEFDPEEDE--PTLEAAWPHLQLVYEFFLRFLESPDF 117
Query: 163 -PKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQ 221
P + YID +F+ LL LF SED RERD LK HRIY KF R+++RK +N++F +
Sbjct: 118 QPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYR 177
Query: 222 YNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYC 281
+ +ETE H GI ELLEI GSIINGF +PLKEEHK+FL++VL+PLHK K + YH QLAYC
Sbjct: 178 FIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYC 237
Query: 282 VSQFVQKEPALGGLVARGILKYWPVTNCRKXXXXXXXXXXXXDSIDPAQYRRLALPLCTK 341
V QF++K+ L V +LKYWP T+ K D I+P+++ ++ PL +
Sbjct: 238 VVQFLEKDSTLTEPVVMALLKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIMEPLFRQ 297
Query: 342 ITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLT 401
+ KC++S + +VAERALY WNNE + ++S + + P++ + +N K HW+K++ L
Sbjct: 298 LAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSKTHWNKTIHGLI 357
Query: 402 ENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRKEKWRRIETL 447
N + +M+ L+ C + + + + + +R+E W +IE L
Sbjct: 358 YNALKLFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENL 403
>pdb|2NYL|B Chain B, Crystal Structure Of Protein Phosphatase 2a (Pp2a)
Holoenzyme With The Catalytic Subunit Carboxyl Terminus
Truncated
pdb|2NYL|E Chain E, Crystal Structure Of Protein Phosphatase 2a (Pp2a)
Holoenzyme With The Catalytic Subunit Carboxyl Terminus
Truncated
pdb|2NYM|B Chain B, Crystal Structure Of Protein Phosphatase 2a (Pp2a) With
C-Terminus Truncated Catalytic Subunit
pdb|2NYM|E Chain E, Crystal Structure Of Protein Phosphatase 2a (Pp2a) With
C-Terminus Truncated Catalytic Subunit
Length = 388
Score = 279 bits (713), Expect = 3e-75, Method: Compositional matrix adjust.
Identities = 144/363 (39%), Positives = 215/363 (59%), Gaps = 7/363 (1%)
Query: 61 CNTIFTF-TDPSESPEQQDLKRFKLLQLLSITKSPKKQLDDYILSHLISMISANLFRPLP 119
C +F F +DP + +++KR L + + + + + I ++ + N FR LP
Sbjct: 12 CCVLFDFVSDPLSDLKWKEVKRAALSEXVEYITHNRNVITEPIYPEVVHXFAVNXFRTLP 71
Query: 120 PPISTPITGDL-PEDEELFSSPQPLWPHLQIVYDILLRLVLHVD--PKTLRDYIDHRFLT 176
P S P + PE++E + + WPHLQ+VY+ LR + D P + YID +F+
Sbjct: 72 PS-SNPTGAEFDPEEDE--PTLEAAWPHLQLVYEFFLRFLESPDFQPNIAKKYIDQKFVL 128
Query: 177 NLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELL 236
LL LF SED RERD LK HRIY KF R+++RK +N++F ++ +ETE H GI ELL
Sbjct: 129 QLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYRFIYETEHHNGIAELL 188
Query: 237 EIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLV 296
EI GSIINGF +PLKEEHK+FL++VL+PLHK K + YH QLAYCV QF++K+ L V
Sbjct: 189 EILGSIINGFALPLKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYCVVQFLEKDSTLTEPV 248
Query: 297 ARGILKYWPVTNCRKXXXXXXXXXXXXDSIDPAQYRRLALPLCTKITKCLNSCNSEVAER 356
+LKYWP T+ K D I+P+++ ++ PL ++ KC++S + +VAER
Sbjct: 249 VXALLKYWPKTHSPKEVXFLNELEEILDVIEPSEFVKIXEPLFRQLAKCVSSPHFQVAER 308
Query: 357 ALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNLY 416
ALY WNNE ++S + + P+ + +N K HW+K++ L N + + + L+
Sbjct: 309 ALYYWNNEYIXSLISDNAAKILPIXFPSLYRNSKTHWNKTIHGLIYNALKLFXEXNQKLF 368
Query: 417 SKC 419
C
Sbjct: 369 DDC 371
>pdb|2JAK|A Chain A, Human Pp2a Regulatory Subunit B56g
Length = 392
Score = 268 bits (686), Expect = 3e-72, Method: Compositional matrix adjust.
Identities = 141/349 (40%), Positives = 211/349 (60%), Gaps = 8/349 (2%)
Query: 46 PYDSEKEEILSAISICNTIFTF-TDPSESPEQQDLKRFKLLQLLSITKSPKKQLDDYILS 104
P D EK + + C +F F +DP + +++KR L +++ + + + I
Sbjct: 47 PADQEKL-FIQKLRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYP 105
Query: 105 HLISMISANLFRPLPPPISTPITGDL-PEDEELFSSPQPLWPHLQIVYDILLRLVLHVD- 162
++ M + N+FR LPP S P + PE++E + + WPHLQ+VY+ LR + D
Sbjct: 106 EVVHMFAVNMFRTLPPS-SNPTGAEFDPEEDE--PTLEAAWPHLQLVYEFFLRFLESPDF 162
Query: 163 -PKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQ 221
P + YID +F+ LL LF SED RERD LK HRIY KF R+++RK +N++F +
Sbjct: 163 QPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYR 222
Query: 222 YNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYC 281
+ +ETE H GI ELLEI GSIINGF +PLKEEHK+FL++VL+PLHK K + YH QLAYC
Sbjct: 223 FIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYC 282
Query: 282 VSQFVQKEPALGGLVARGILKYWPVTNCRKXXXXXXXXXXXXDSIDPAQYRRLALPLCTK 341
V QF++K+ L V +LKYWP T+ K D I+P+++ ++ PL +
Sbjct: 283 VVQFLEKDSTLTEPVVMALLKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIMEPLFRQ 342
Query: 342 ITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLK 390
+ KC++S + +VAERALY WNNE + ++S + + P++ + +N K
Sbjct: 343 LAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSK 391
>pdb|2DF4|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Mn2+
pdb|2DQN|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Asn
pdb|2G5H|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
pdb|2G5I|A Chain A, Structure Of Trna-dependent Amidotransferase Gatcab
Complexed With Adp-alf4
pdb|3IP4|A Chain A, The High Resolution Structure Of Gatcab
pdb|2F2A|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Gln
Length = 485
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/134 (23%), Positives = 60/134 (44%), Gaps = 14/134 (10%)
Query: 170 IDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFM--------RKAMNDVFLQ 221
I + + NLL+L + + ++ D +K+IY I +SF+ +KA LQ
Sbjct: 3 IRYESVENLLTLIKDKKIKPSDVVKDIYDAIEETDPTIKSFLALDKENAIKKAQELDELQ 62
Query: 222 YNFETEKHCGIGELLEI-WGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAY 280
+ + G+L I G N T L+ ++ +P+++S M+ H++ A
Sbjct: 63 AKDQMD-----GKLFGIPMGIKDNIITNGLETTCASKMLEGFVPIYESTVMEKLHKENAV 117
Query: 281 CVSQFVQKEPALGG 294
+ + E A+GG
Sbjct: 118 LIGKLNMDEFAMGG 131
>pdb|2B2U|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2U|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2V|A Chain A, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2V|B Chain B, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2W|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4
pdb|2B2W|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4
pdb|2B2Y|A Chain A, Tandem Chromodomains Of Human Chd1
pdb|2B2Y|B Chain B, Tandem Chromodomains Of Human Chd1
Length = 187
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 131 PEDEELFSSPQPLWPHLQIVYDILLRLVLHVDPKTLRDYIDH 172
PED E ++ Q L L Y I+ R++ H + K+ Y D+
Sbjct: 110 PEDVEYYNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDY 151
>pdb|2B2T|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
pdb|2B2T|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With Histone
H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 187
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 131 PEDEELFSSPQPLWPHLQIVYDILLRLVLHVDPKTLRDYIDH 172
PED E ++ Q L L Y I+ R++ H + K+ Y D+
Sbjct: 110 PEDVEYYNCQQELTDDLHKQYQIVGRIIAHSNQKSAAGYPDY 151
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
0.320 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,223,471
Number of Sequences: 62578
Number of extensions: 454964
Number of successful extensions: 1071
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1049
Number of HSP's gapped (non-prelim): 9
length of query: 467
length of database: 14,973,337
effective HSP length: 102
effective length of query: 365
effective length of database: 8,590,381
effective search space: 3135489065
effective search space used: 3135489065
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)