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= psy4885
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4D8O|A Chain A, Crystal Structure Of The Ankyrin-B Zu5-Zu5-Upa-Dd Tandem
Length = 581
Score = 225 bits (573), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 115/214 (53%), Positives = 148/214 (69%), Gaps = 38/214 (17%)
Query: 1 MESEALASRILELGPAGAKFLGPVIIEVPHFASLRNKERELIILRSDDGSTWKEHKLDAS 60
+E E LASR++E+GP+GA+FLGPVI+E+PHFA+LR KEREL++LRS++G +WKEH D +
Sbjct: 76 VEGEGLASRLIEVGPSGAQFLGPVIVEIPHFAALRGKERELVVLRSENGDSWKEHFCDYT 135
Query: 61 EEAVQEVLNESFPGEELRQLEDLHTSRIVRILTVDFPQYFAVVSRLRQEIHAVGPEGGV- 119
E+ + E+LN E L EDL RI RI+T DFPQYFAVVSR++Q+ + +GPEGGV
Sbjct: 136 EDELNEILNGM--DEVLDSPEDLEKKRICRIITRDFPQYFAVVSRIKQDSNLIGPEGGVL 193
Query: 120 --------------------------AQPIPSELVTKLLGNRVAVSPIVSIEPRRRKFHK 153
AQP+ SELV K+LGN+ SPIV++EPRRRKFHK
Sbjct: 194 SSTVVPQVQAVFPEGALTKRIRVGLQAQPMHSELVKKILGNKATFSPIVTLEPRRRKFHK 253
Query: 154 PITLTIPLPQAANKGMINQYSGNAPTLRLLCSIT 187
PIT+TIP+P+A SG+APTLRLLCSIT
Sbjct: 254 PITMTIPVPKA---------SGDAPTLRLLCSIT 278
>pdb|3UD1|A Chain A, Crystal Structure Of Zu5a-Zu5b Domains Of Human
Erythrocyte Ankyrin
pdb|3UD1|B Chain B, Crystal Structure Of Zu5a-Zu5b Domains Of Human
Erythrocyte Ankyrin
pdb|3UD1|C Chain C, Crystal Structure Of Zu5a-Zu5b Domains Of Human
Erythrocyte Ankyrin
Length = 326
Score = 182 bits (463), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 101/212 (47%), Positives = 131/212 (61%), Gaps = 29/212 (13%)
Query: 2 ESEALASRILELGPAGAKFLGPVIIEVPHFASLRNKERELIILRSDDGSTWKEHKLDASE 61
E E LASRI+ LGP GA+FL PVI+E+PHFAS +REL++LRS++GS WKEH+ E
Sbjct: 60 EEEGLASRIIALGPTGAQFLSPVIVEIPHFASHGRGDRELVVLRSENGSVWKEHRSRYGE 119
Query: 62 EAVQEVLNESFPGEELRQLEDLHTSRIVRILTVDFPQYFAVVSRLRQEIHAVGPEGGV-- 119
+ ++LN EEL LE+L R+ RI+T DFP YF ++SRL Q+ +GPEGG
Sbjct: 120 SYLDQILNGM--DEELGSLEELEKKRVCRIITTDFPLYFVIMSRLCQDYDIIGPEGGSLK 177
Query: 120 -------------------------AQPIPSELVTKLLGNRVAVSPIVSIEPRRRKFHKP 154
AQP+P ELVTKLLGN+ SPIV++EPRRRKFH+P
Sbjct: 178 SKLVPLVQATFPENAVTKRVKLALQAQPVPDELVTKLLGNQATFSPIVTVEPRRRKFHRP 237
Query: 155 ITLTIPLPQAANKGMINQYSGNAPTLRLLCSI 186
I L IPLP + + G+ +LRLLCS+
Sbjct: 238 IGLRIPLPPSWTDNPRDSGEGDTTSLRLLCSV 269
>pdb|3UD2|C Chain C, Crystal Structure Of Selenomethionine Zu5a-Zu5b Protein
Domains Of Human Erythrocyte Ankyrin
pdb|3UD2|B Chain B, Crystal Structure Of Selenomethionine Zu5a-Zu5b Protein
Domains Of Human Erythrocyte Ankyrin
pdb|3UD2|A Chain A, Crystal Structure Of Selenomethionine Zu5a-Zu5b Protein
Domains Of Human Erythrocyte Ankyrin
Length = 326
Score = 182 bits (462), Expect = 9e-47, Method: Compositional matrix adjust.
Identities = 101/212 (47%), Positives = 130/212 (61%), Gaps = 29/212 (13%)
Query: 2 ESEALASRILELGPAGAKFLGPVIIEVPHFASLRNKERELIILRSDDGSTWKEHKLDASE 61
E E LASRI+ LGP GA+FL PVI+E+PHFAS +REL++LRS++GS WKEH+ E
Sbjct: 60 EEEGLASRIIALGPTGAQFLSPVIVEIPHFASHGRGDRELVVLRSENGSVWKEHRSRYGE 119
Query: 62 EAVQEVLNESFPGEELRQLEDLHTSRIVRILTVDFPQYFAVVSRLRQEIHAVGPEGGV-- 119
+ ++LN EEL LE+L R+ RI+T DFP YF + SRL Q+ +GPEGG
Sbjct: 120 SYLDQILNGX--DEELGSLEELEKKRVCRIITTDFPLYFVIXSRLCQDYDIIGPEGGSLK 177
Query: 120 -------------------------AQPIPSELVTKLLGNRVAVSPIVSIEPRRRKFHKP 154
AQP+P ELVTKLLGN+ SPIV++EPRRRKFH+P
Sbjct: 178 SKLVPLVQATFPENAVTKRVKLALQAQPVPDELVTKLLGNQATFSPIVTVEPRRRKFHRP 237
Query: 155 ITLTIPLPQAANKGMINQYSGNAPTLRLLCSI 186
I L IPLP + + G+ +LRLLCS+
Sbjct: 238 IGLRIPLPPSWTDNPRDSGEGDTTSLRLLCSV 269
>pdb|3F59|A Chain A, Crystal Structure Of Zu5-Ank, The Spectrin Binding Region
Of Human Erythroid Ankyrin
pdb|3F59|B Chain B, Crystal Structure Of Zu5-Ank, The Spectrin Binding Region
Of Human Erythroid Ankyrin
pdb|3F59|C Chain C, Crystal Structure Of Zu5-Ank, The Spectrin Binding Region
Of Human Erythroid Ankyrin
pdb|3F59|D Chain D, Crystal Structure Of Zu5-Ank, The Spectrin Binding Region
Of Human Erythroid Ankyrin
pdb|3KBT|C Chain C, Crystal Structure Of The Ankyrin Binding Domain Of Human
Erythroid Beta Spectrin (Repeats 13-15) In Complex With
The Spectrin Binding Domain Of Human Erythroid Ankyrin
(Zu5-Ank)
pdb|3KBT|D Chain D, Crystal Structure Of The Ankyrin Binding Domain Of Human
Erythroid Beta Spectrin (Repeats 13-15) In Complex With
The Spectrin Binding Domain Of Human Erythroid Ankyrin
(Zu5-Ank)
pdb|3KBU|C Chain C, Crystal Structure Of The Ankyrin Binding Domain Of Human
Erythroid Beta Spectrin (Repeats 13-15) In Complex With
The Spectrin Binding Domain Of Human Erythroid Ankyrin
(Zu5-Ank), Emts Derivative
pdb|3KBU|D Chain D, Crystal Structure Of The Ankyrin Binding Domain Of Human
Erythroid Beta Spectrin (Repeats 13-15) In Complex With
The Spectrin Binding Domain Of Human Erythroid Ankyrin
(Zu5-Ank), Emts Derivative
Length = 161
Score = 103 bits (256), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 55/104 (52%), Positives = 73/104 (70%), Gaps = 2/104 (1%)
Query: 2 ESEALASRILELGPAGAKFLGPVIIEVPHFASLRNKERELIILRSDDGSTWKEHKLDASE 61
E E LASRI+ LGP GA+FL PVI+E+PHFAS +REL++LRS++GS WKEH+ E
Sbjct: 60 EEEGLASRIIALGPTGAQFLSPVIVEIPHFASHGRGDRELVVLRSENGSVWKEHRSRYGE 119
Query: 62 EAVQEVLNESFPGEELRQLEDLHTSRIVRILTVDFPQYFAVVSR 105
+ ++LN EEL LE+L R+ RI+T DFP YF ++SR
Sbjct: 120 SYLDQILNGM--DEELGSLEELEKKRVCRIITTDFPLYFVIMSR 161
>pdb|3Q3E|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase
pdb|3Q3E|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase
pdb|3Q3H|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In Complex With Udp-Glc
pdb|3Q3H|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In Complex With Udp-Glc
pdb|3Q3I|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In The Presence Of Peptide
N1131
pdb|3Q3I|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In The Presence Of Peptide
N1131
Length = 631
Score = 30.4 bits (67), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 3/74 (4%)
Query: 101 AVVSRLRQEIH---AVGPEGGVAQPIPSELVTKLLGNRVAVSPIVSIEPRRRKFHKPITL 157
A+ R + ++H A+G G+ P + LG+ P R H +
Sbjct: 463 AIRDRAKVKVHFHFALGQSNGITHPYVERFIKSYLGDSATAHPHSPYHQYLRILHNCDMM 522
Query: 158 TIPLPQAANKGMIN 171
P P G+I+
Sbjct: 523 VNPFPFGNTNGIID 536
>pdb|3EF6|A Chain A, Crystal Structure Of Toluene 2,3-Dioxygenase Reductase
pdb|4EMI|A Chain A, Toluene Dioxygenase Reductase In Reduced State In Complex
With Nad+
pdb|4EMJ|A Chain A, Complex Between The Reductase And Ferredoxin Components Of
Toluene Dioxygenase
Length = 410
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 51 TWKE---HKLDASE--EAVQEVLNESFPGEELRQLEDLHTSRIVRILTVDFPQYFAVVSR 105
+W E H++ + E + ++ PG L L RI ++ VD P+ FA+ +R
Sbjct: 319 SWTEIAGHRMQMAGDIEGPGDFVSRGMPGSGAALLFRLQERRIQAVVAVDAPRDFALATR 378
Query: 106 LRQEIHAVGP 115
L + A+ P
Sbjct: 379 LVEARAAIEP 388
>pdb|2KXS|A Chain A, Zo1 Zu5 Domain In Complex With Grinl1a Peptide
Length = 146
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 2 ESEALASRILELGPAGAKFLGPVIIEVPH 30
+ E L S ++ GP G KFL PV + +PH
Sbjct: 73 KGETLLSPLVMCGPHGLKFLKPVELRLPH 101
>pdb|2KXR|A Chain A, Zo1 Zu5 Domain McAA MUTATION
Length = 118
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 2 ESEALASRILELGPAGAKFLGPVIIEVPH 30
+ E L S ++ GP G KFL PV + +PH
Sbjct: 59 KGETLLSPLVAAGPHGLKFLKPVELRLPH 87
>pdb|4GZ9|A Chain A, Mouse Neuropilin-1, Extracellular Domains 1-4 (A1a2b1b2)
pdb|4GZA|H Chain H, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
Length = 577
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 39 RELIILRSDDGSTWKEHKLDASEEAVQEVLNESFPGEELRQLEDLHTSRIVRI 91
R+ I S++GS WK D+ +A N ++ ELR L T R +RI
Sbjct: 495 RKFKIAYSNNGSDWKTIMDDSKRKAKSFEGNNNYDTPELRTFSPLST-RFIRI 546
>pdb|2O8B|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR
pdb|2O8C|A Chain A, Human Mutsalpha (msh2/msh6) Bound To Adp And An
O6-methyl-guanine T Mispair
pdb|2O8D|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G DU MISPAIR
pdb|2O8F|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO DNA WITH A SINGLE BASE
T INSERT
pdb|3THW|A Chain A, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|A Chain A, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|A Chain A, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|A Chain A, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 934
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 13 LGPAGAKFLGPVIIEVPHFASLRNKERELIILRSDDGSTWKEHKLD-ASEEAVQEVLNES 71
+GPAGAK L V++ +F S ++L+++R +K + AS+E + ++
Sbjct: 67 MGPAGAKNLQSVVLSKMNFESFV---KDLLLVRQYRVEVYKNRAGNKASKENDWYLAYKA 123
Query: 72 FPGEELRQLEDL 83
PG L Q ED+
Sbjct: 124 SPG-NLSQFEDI 134
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 13 LGPAGAKFLGPVIIEVPHFASLRNKERELIILRSDDGSTWKEHKLD-ASEEAVQEVLNES 71
+GPAGAK L V++ +F S ++L+++R +K + AS+E + ++
Sbjct: 67 MGPAGAKNLQSVVLSKMNFESFV---KDLLLVRQYRVEVYKNRAGNKASKENDWYLAYKA 123
Query: 72 FPGEELRQLEDL 83
PG L Q ED+
Sbjct: 124 SPG-NLSQFEDI 134
>pdb|3EY5|A Chain A, Putative Acetyltransferase From Gnat Family From
Bacteroides Thetaiotaomicron
Length = 181
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 19/26 (73%), Gaps = 2/26 (7%)
Query: 65 QEVLNESFPGEELRQLEDL--HTSRI 88
+E+L ESFP EE R+LE L +T RI
Sbjct: 22 EELLVESFPPEEYRELEHLREYTDRI 47
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
0.318 0.136 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,341,990
Number of Sequences: 62578
Number of extensions: 207979
Number of successful extensions: 589
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 570
Number of HSP's gapped (non-prelim): 15
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)