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= psy11027
(252 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W63|A Chain A, Ap1 Clathrin Adaptor Core
pdb|1W63|C Chain C, Ap1 Clathrin Adaptor Core
pdb|1W63|E Chain E, Ap1 Clathrin Adaptor Core
pdb|1W63|G Chain G, Ap1 Clathrin Adaptor Core
pdb|1W63|I Chain I, Ap1 Clathrin Adaptor Core
pdb|1W63|K Chain K, Ap1 Clathrin Adaptor Core
Length = 618
Score = 78.2 bits (191), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 41/123 (33%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 1 MLTTNMIRKDLNAQNQYDAGLALSALACFTSTDLARDLANDIMMLLTSTKPYLRKKAVLM 60
+L TN I+ DLN Q+ GLAL L C S+++ RDLA ++ LL ++ YLRKKA L
Sbjct: 106 LLMTNCIKNDLNHSTQFVQGLALCTLGCMGSSEMCRDLAGEVEKLLKTSNSYLRKKAALC 165
Query: 61 MYKVFLKFPDALRPAFPRLKEKLEDPDSGVQSAAVNVVCELARKNPK---NYLSLAPVFF 117
V K P+ + P K L + + GV +V ++ E+ ++P ++ L P
Sbjct: 166 AVHVIRKVPELMEMFLPATKNLLNEKNHGVLHTSVVLLTEMCERSPDMLAHFRKLVPQLV 225
Query: 118 KLM 120
+++
Sbjct: 226 RIL 228
>pdb|3POT|B Chain B, Structural Analysis Of A Ni(Iii)-Methyl Species In
Methyl-Coenzyme M Reductase From Methanothermobacter
Marburgensis
pdb|3POT|E Chain E, Structural Analysis Of A Ni(Iii)-Methyl Species In
Methyl-Coenzyme M Reductase From Methanothermobacter
Marburgensis
Length = 443
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 62/144 (43%), Gaps = 6/144 (4%)
Query: 16 QYDAGLALSALACFTSTDLARDLANDIMMLLTSTKPYLRKKAVLMMYKVFLKFPDALRPA 75
++D SA T+T + + N+ + + + K AVL Y +++ A
Sbjct: 120 RFDVAAEYSAAPLVTATAFVQAIINEFDVSMYDAN--MVKAAVLGRYPQSVEYMGANIAT 177
Query: 76 FPRLKEKLEDPDSGVQSAAVNVVCELARKNPKNYLSLAPVFFKL----MTTSSNNWMLIK 131
+ +KLE P +++ VN V KN +L+ + + M + + +
Sbjct: 178 MLDIPQKLEGPGYALRNIMVNHVVAATLKNTLQAAALSTILEQTAMFEMGDAVGAFERMH 237
Query: 132 IIKLRLQGVFAVNVVCELARKNPK 155
++ L QG+ A N+V +L + N K
Sbjct: 238 LLGLAYQGMNADNLVFDLVKANGK 261
>pdb|1MRO|B Chain B, Methyl-Coenzyme M Reductase
pdb|1MRO|E Chain E, Methyl-Coenzyme M Reductase
pdb|1HBM|B Chain B, Methyl-Coenzyme M Reductase Enzyme Product Complex
pdb|1HBM|E Chain E, Methyl-Coenzyme M Reductase Enzyme Product Complex
pdb|1HBN|B Chain B, Methyl-Coenzyme M Reductase
pdb|1HBN|E Chain E, Methyl-Coenzyme M Reductase
pdb|1HBO|B Chain B, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
pdb|1HBO|E Chain E, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
pdb|1HBU|B Chain B, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
In Complex With Coenzyme M
pdb|1HBU|E Chain E, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
In Complex With Coenzyme M
pdb|3M1V|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M1V|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2R|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2R|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2U|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2U|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2V|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2V|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M30|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M30|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M32|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M32|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
Length = 442
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 62/144 (43%), Gaps = 6/144 (4%)
Query: 16 QYDAGLALSALACFTSTDLARDLANDIMMLLTSTKPYLRKKAVLMMYKVFLKFPDALRPA 75
++D SA T+T + + N+ + + + K AVL Y +++ A
Sbjct: 119 RFDVAAEYSAAPLVTATAFVQAIINEFDVSMYDAN--MVKAAVLGRYPQSVEYMGANIAT 176
Query: 76 FPRLKEKLEDPDSGVQSAAVNVVCELARKNPKNYLSLAPVFFKL----MTTSSNNWMLIK 131
+ +KLE P +++ VN V KN +L+ + + M + + +
Sbjct: 177 MLDIPQKLEGPGYALRNIMVNHVVAATLKNTLQAAALSTILEQTAMFEMGDAVGAFERMH 236
Query: 132 IIKLRLQGVFAVNVVCELARKNPK 155
++ L QG+ A N+V +L + N K
Sbjct: 237 LLGLAYQGMNADNLVFDLVKANGK 260
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 52/135 (38%), Gaps = 17/135 (12%)
Query: 1 MLTTNMIRKDLNAQNQYDAGLALSALACFTSTDLARDLANDIMMLLTSTKPYLRKKAVLM 60
++ N KD N LA+ + C + L + L PY+RK A +
Sbjct: 85 IMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVC 144
Query: 61 MYKVF---------LKFPDALRPAFPRLKEKLEDPDSGVQSAAVNVVCELARKNP-KNYL 110
+ K+ F D+LR + + D + V + AV + E++ +P N L
Sbjct: 145 VAKLHDINAQMVEDQGFLDSLR-------DLIADSNPMVVANAVAALSEISESHPNSNLL 197
Query: 111 SLAPVFFKLMTTSSN 125
L P + T+ N
Sbjct: 198 DLNPQNINKLLTALN 212
>pdb|2VGL|B Chain B, Ap2 Clathrin Adaptor Core
pdb|2JKR|B Chain B, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|E Chain E, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|B Chain B, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|E Chain E, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 591
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 52/135 (38%), Gaps = 17/135 (12%)
Query: 1 MLTTNMIRKDLNAQNQYDAGLALSALACFTSTDLARDLANDIMMLLTSTKPYLRKKAVLM 60
++ N KD N LA+ + C + L + L PY+RK A +
Sbjct: 85 IMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVC 144
Query: 61 MYKVF---------LKFPDALRPAFPRLKEKLEDPDSGVQSAAVNVVCELARKNP-KNYL 110
+ K+ F D+LR + + D + V + AV + E++ +P N L
Sbjct: 145 VAKLHDINAQMVEDQGFLDSLR-------DLIADSNPMVVANAVAALSEISESHPNSNLL 197
Query: 111 SLAPVFFKLMTTSSN 125
L P + T+ N
Sbjct: 198 DLNPQNINKLLTALN 212
>pdb|2QNA|A Chain A, Crystal Structure Of Human Importin-Beta (127-876) In
Complex With The Ibb-Domain Of Snurportin1 (1-65)
Length = 762
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 15/101 (14%)
Query: 70 DALRPAFPRLKEKLEDPDSGVQSAAVNVV-CELARKNPKNYLSLAPVFFKLMTTSSNNWM 128
D + P +KE +++PD + AAV C L P L P+ + M T
Sbjct: 237 DIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQ---LKPLVIQAMPT------ 287
Query: 129 LIKIIK-----LRLQGVFAVNVVCELARKNPKNYLSLAPVF 164
LI+++K +R + V +CEL + N + LAP+
Sbjct: 288 LIELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLL 328
>pdb|1QGK|A Chain A, Structure Of Importin Beta Bound To The Ibb Domain Of
Importin Alpha
pdb|1QGR|A Chain A, Structure Of Importin Beta Bound To The Ibb Domain Of
Importin Alpha (Ii Crystal Form, Grown At Low Ph)
Length = 876
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 15/101 (14%)
Query: 70 DALRPAFPRLKEKLEDPDSGVQSAAVNVV-CELARKNPKNYLSLAPVFFKLMTTSSNNWM 128
D + P +KE +++PD + AAV C L P L P+ + M T
Sbjct: 362 DIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQ---LKPLVIQAMPT------ 412
Query: 129 LIKIIK-----LRLQGVFAVNVVCELARKNPKNYLSLAPVF 164
LI+++K +R + V +CEL + N + LAP+
Sbjct: 413 LIELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLL 453
>pdb|1M5N|S Chain S, Crystal Structure Of Heat Repeats (1-11) Of Importin B
Bound To The Non-Classical Nls(67-94) Of Pthrp
Length = 485
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 15/101 (14%)
Query: 70 DALRPAFPRLKEKLEDPDSGVQSAAVNVV-CELARKNPKNYLSLAPVFFKLMTTSSNNWM 128
D + P +KE +++PD + AAV C L P L P+ + M T
Sbjct: 362 DIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQ---LKPLVIQAMPT------ 412
Query: 129 LIKIIK-----LRLQGVFAVNVVCELARKNPKNYLSLAPVF 164
LI+++K +R + V +CEL + N + LAP+
Sbjct: 413 LIELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLL 453
>pdb|2P8Q|A Chain A, Crystal Structure Of Human Importin Beta Bound To The
Snurportin1 Ibb- Domain
pdb|2Q5D|A Chain A, Crystal Structure Of Human Importin Beta Bound To The
Snurportin1 Ibb-Domain Second Crystal Form
pdb|2Q5D|B Chain B, Crystal Structure Of Human Importin Beta Bound To The
Snurportin1 Ibb-Domain Second Crystal Form
pdb|3LWW|A Chain A, Structure Of An Open And Closed Conformation Of Human
Importin Beta Bound To The Snurportin1 Ibb-Domain
Trapped In The Same Crystallographic Asymmetric Unit
pdb|3LWW|C Chain C, Structure Of An Open And Closed Conformation Of Human
Importin Beta Bound To The Snurportin1 Ibb-Domain
Trapped In The Same Crystallographic Asymmetric Unit
Length = 876
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 15/101 (14%)
Query: 70 DALRPAFPRLKEKLEDPDSGVQSAAVNVV-CELARKNPKNYLSLAPVFFKLMTTSSNNWM 128
D + P +KE +++PD + AAV C L P L P+ + M T
Sbjct: 362 DIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQ---LKPLVIQAMPT------ 412
Query: 129 LIKIIK-----LRLQGVFAVNVVCELARKNPKNYLSLAPVF 164
LI+++K +R + V +CEL + N + LAP+
Sbjct: 413 LIELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLL 453
>pdb|1IBR|D Chain D, Complex Of Ran With Importin Beta
pdb|1IBR|B Chain B, Complex Of Ran With Importin Beta
Length = 462
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 15/101 (14%)
Query: 70 DALRPAFPRLKEKLEDPDSGVQSAAVNVV-CELARKNPKNYLSLAPVFFKLMTTSSNNWM 128
D + P +KE +++PD + AAV C L P L P+ + M T
Sbjct: 362 DIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQ---LKPLVIQAMPT------ 412
Query: 129 LIKIIK-----LRLQGVFAVNVVCELARKNPKNYLSLAPVF 164
LI+++K +R + V +CEL + N + LAP+
Sbjct: 413 LIELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLL 453
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
0.323 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,179,400
Number of Sequences: 62578
Number of extensions: 206190
Number of successful extensions: 681
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 670
Number of HSP's gapped (non-prelim): 18
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.9 bits)