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= psy9828
(311 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SHW|A Chain A, Crystal Structure Of Zo-1 Pdz3-Sh3-Guk Supramodule Complex
With Connexin-45 Peptide
Length = 468
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 44/116 (37%), Positives = 70/116 (60%), Gaps = 1/116 (0%)
Query: 26 VQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKK 85
VQ + YE VV + G + + +++ + D++ + + E +D ++
Sbjct: 206 VQTKFPAYERVVLREAGFLRPVTIFGPIADVAREKLAREEPDIYQIAKSEPRDAGTD-QR 264
Query: 86 CSGIIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELR 141
SGIIRL I+ ++D+ +H LLD+TPNAVDRLNYAQ+YPIV+FL ++K VK +R
Sbjct: 265 SSGIIRLHTIKQIIDQDKHALLDVTPNAVDRLNYAQWYPIVVFLNPDSKQGVKTMR 320
Score = 70.9 bits (172), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 50/75 (66%), Gaps = 2/75 (2%)
Query: 1 MDMKGITREEAVLFLLSLQ--DQIHLIVQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEK 58
+D I REEAVLFLL L +++ ++ Q ++D Y +V S GDSF+I+THF Y++
Sbjct: 53 VDFTNIIREEAVLFLLDLPKGEEVTILAQKKKDVYRRIVESDVGDSFYIRTHFEYEKESP 112
Query: 59 GEMSFRKGDVFHVIE 73
+SF KG+VF V++
Sbjct: 113 YGLSFNKGEVFRVVD 127
>pdb|3LH5|A Chain A, Crystal Structure Of The Sh3-Guanylate Kinase Core Domain
Of Zo-1
Length = 251
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 44/116 (37%), Positives = 70/116 (60%), Gaps = 1/116 (0%)
Query: 26 VQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKK 85
VQ + YE VV + G + + +++ + D++ + + E +D ++
Sbjct: 74 VQTKFPAYERVVLREAGFLRPVTIFGPIADVAREKLAREEPDIYQIAKSEPRDAGTD-QR 132
Query: 86 CSGIIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELR 141
SGIIRL I+ ++D+ +H LLD+TPNAVDRLNYAQ+YPIV+FL ++K VK +R
Sbjct: 133 SSGIIRLHTIKQIIDQDKHALLDVTPNAVDRLNYAQWYPIVVFLNPDSKQGVKTMR 188
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 24/32 (75%)
Query: 42 GDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
GDSF+I+THF Y++ +SF KG+VF V++
Sbjct: 1 GDSFYIRTHFEYEKESPYGLSFNKGEVFRVVD 32
>pdb|3TSW|A Chain A, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSW|C Chain C, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSW|D Chain D, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSZ|A Chain A, Crystal Structure Of Pdz3-Sh3-Guk Core Module From Human
Zo-1 In Complex With 12mer Peptide From Human Jam-A
Cytoplasmic Tail
Length = 391
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 44/116 (37%), Positives = 70/116 (60%), Gaps = 1/116 (0%)
Query: 26 VQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKK 85
VQ + YE VV + G + + +++ + D++ + + E +D ++
Sbjct: 214 VQTKFPAYERVVLREAGFLRPVTIFGPIADVAREKLAREEPDIYQIAKSEPRDAGTD-QR 272
Query: 86 CSGIIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELR 141
SGIIRL I+ ++D+ +H LLD+TPNAVDRLNYAQ+YPIV+FL ++K VK +R
Sbjct: 273 SSGIIRLHTIKQIIDQDKHALLDVTPNAVDRLNYAQWYPIVVFLNPDSKQGVKTMR 328
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 50/75 (66%), Gaps = 2/75 (2%)
Query: 1 MDMKGITREEAVLFLLSLQ--DQIHLIVQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEK 58
+D I REEAVLFLL L +++ ++ Q ++D Y +V S GDSF+I+THF Y++
Sbjct: 61 VDFTNIIREEAVLFLLDLPKGEEVTILAQKKKDVYRRIVESDVGDSFYIRTHFEYEKESP 120
Query: 59 GEMSFRKGDVFHVIE 73
+SF KG+VF V++
Sbjct: 121 YGLSFNKGEVFRVVD 135
>pdb|3TSW|B Chain B, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
Length = 194
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 50/75 (66%), Gaps = 2/75 (2%)
Query: 1 MDMKGITREEAVLFLLSL--QDQIHLIVQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEK 58
+D I REEAVLFLL L +++ ++ Q ++D Y +V S GDSF+I+THF Y++
Sbjct: 54 VDFTNIIREEAVLFLLDLPKGEEVTILAQKKKDVYRRIVESDVGDSFYIRTHFEYEKESP 113
Query: 59 GEMSFRKGDVFHVIE 73
+SF KG+VF V++
Sbjct: 114 YGLSFNKGEVFRVVD 128
>pdb|3KFV|A Chain A, Crystal Structure Of The Sh3-Kinase Fragment Of Tight
Junction Protein 3 (Tjp3) In Apo-Form
Length = 308
Score = 67.8 bits (164), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 64/120 (53%), Gaps = 19/120 (15%)
Query: 72 IELENMMEESDSKKCSGIIRLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRA 131
E+ + +DS S II+L +R + ++ +H LLD+TP+A++RLNY Q+YPIV+F
Sbjct: 170 FEIAETVSRTDSP--SKIIKLDTVRVIAEKDKHALLDVTPSAIERLNYVQYYPIVVFFIP 227
Query: 132 ETKSNVKELRAGIP-----------------KLNSAQFFSVVIFLRAETKSNVKELRAGI 174
E++ +K LR + + +S+ F+ I L + + +EL+A I
Sbjct: 228 ESRPALKALRQWLAPASRRSTRRLYAQAQKLRKHSSHLFTATIPLNGTSDTWYQELKAII 287
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 42 GDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
GDSF+I+THF + + F +GDVFHV++
Sbjct: 2 GDSFYIRTHFELEPSPPSGLGFTRGDVFHVLD 33
>pdb|3UAT|A Chain A, Guanylate Kinase Domains Of The Maguk Family Scaffold
Proteins As Specific Phospho-Protein Binding Modules
Length = 296
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 42/71 (59%)
Query: 92 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELRAGIPKLNSAQ 151
+ ++R + ++G+H +LD++ NA+ RL AQ YPI IF++ ++ N+ E+ + + +
Sbjct: 185 VQSVRAVAEKGKHCILDVSGNAIKRLQIAQLYPISIFIKPKSMENIMEMNKRLTDEQARK 244
Query: 152 FFSVVIFLRAE 162
F + L E
Sbjct: 245 TFERAVRLEQE 255
>pdb|3TVT|A Chain A, Structural Basis For Discs Large Interaction With Pins
Length = 292
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 37/49 (75%)
Query: 92 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKEL 140
++++R++ ++G+H +LD++ NA+ RL AQ YP+ +F++ ++ +V E+
Sbjct: 179 VASVREVAEKGKHCILDVSGNAIKRLQVAQLYPVAVFIKPKSVDSVMEM 227
>pdb|1JXM|A Chain A, Crystal Structure Of The Gmp Bound Sh3-Hook-Gk Fragment Of
Psd-95
pdb|1JXO|A Chain A, Crystal Structure Of The Sh3-Hook-Gk Fragment Of Psd-95
pdb|1JXO|B Chain B, Crystal Structure Of The Sh3-Hook-Gk Fragment Of Psd-95
Length = 301
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 41/71 (57%)
Query: 92 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELRAGIPKLNSAQ 151
+ ++R++ ++G+H +LD++ NAV RL A +PI IF+R + NV E+ I + + +
Sbjct: 190 VQSVREVAEQGKHCILDVSANAVRRLQAAHLHPIAIFIRPRSLENVLEINKRITEEQARK 249
Query: 152 FFSVVIFLRAE 162
F L E
Sbjct: 250 AFDRATKLEQE 260
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 38 ASQRGDSFHIKTHFNYDQPEKG-----EMSFRKGDVFHVIE 73
S F+I+ F+YD+ + +SFR GDV HVI+
Sbjct: 1 GSHMASGFYIRALFDYDKTKDCGFLSQALSFRFGDVLHVID 41
>pdb|1KJW|A Chain A, Sh3-Guanylate Kinase Module From Psd-95
Length = 295
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 41/71 (57%)
Query: 92 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELRAGIPKLNSAQ 151
+ ++R++ ++G+H +LD++ NAV RL A +PI IF+R + NV E+ I + + +
Sbjct: 184 VQSVREVAEQGKHCILDVSANAVRRLQAAHLHPIAIFIRPRSLENVLEINKRITEEQARK 243
Query: 152 FFSVVIFLRAE 162
F L E
Sbjct: 244 AFDRATKLEQE 254
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 5/34 (14%)
Query: 45 FHIKTHFNYDQPEKG-----EMSFRKGDVFHVIE 73
F+I+ F+YD+ + +SFR GDV HVI+
Sbjct: 2 FYIRALFDYDKTKDCGFLSQALSFRFGDVLHVID 35
>pdb|2XKX|A Chain A, Single Particle Analysis Of Psd-95 In Negative Stain
pdb|2XKX|B Chain B, Single Particle Analysis Of Psd-95 In Negative Stain
Length = 721
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 41/71 (57%)
Query: 92 LSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAETKSNVKELRAGIPKLNSAQ 151
+ ++R++ ++G+H +LD++ NAV RL A +PI IF+R + NV E+ I + + +
Sbjct: 610 VQSVREVAEQGKHCILDVSANAVRRLQAAHLHPIAIFIRPRSLENVLEINKRITEEQARK 669
Query: 152 FFSVVIFLRAE 162
F L E
Sbjct: 670 AFDRATKLEQE 680
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 45/100 (45%), Gaps = 27/100 (27%)
Query: 1 MDMKGITREEAVLFLLSLQDQIHLIVQNRRDEY-----------EHVVASQRGDS----- 44
+D++ + E+A + L + + +I Q + +EY E ++ S G
Sbjct: 362 VDLRNASHEQAAIALKNAGQTVTIIAQYKPEEYSRFEAKIHDLREQLMNSSLGSGTASLR 421
Query: 45 ------FHIKTHFNYDQPEKG-----EMSFRKGDVFHVIE 73
F+I+ F+YD+ + +SFR GDV HVI+
Sbjct: 422 SNPKRGFYIRALFDYDKTKDCGFLSQALSFRFGDVLHVID 461
>pdb|1KGD|A Chain A, Crystal Structure Of The Guanylate Kinase-Like Domain Of
Human Cask
Length = 180
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 91 RLSAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIVIFLRAET 133
+L IR + ++G +LD+ P A+ L A+F P V+F+ A T
Sbjct: 85 KLETIRKIHEQGLIAILDVEPQALKVLRTAEFAPFVVFIAAPT 127
>pdb|2ESW|A Chain A, Atomic Structure Of The N-Terminal Sh3 Domain Of Mouse
Beta Pix,P21-Activated Kinase (Pak)-Interacting
Exchange Factor
pdb|2ESW|B Chain B, Atomic Structure Of The N-Terminal Sh3 Domain Of Mouse
Beta Pix,P21-Activated Kinase (Pak)-Interacting
Exchange Factor
Length = 61
Score = 36.2 bits (82), Expect = 0.025, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 42 GDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIELE 75
G ++ FN+ Q + E+SF KGDV HV +E
Sbjct: 4 GSQLVVRAKFNFQQTNEDELSFSKGDVIHVTRVE 37
>pdb|3TSV|A Chain A, Crystal Structure Of The Third Pdz Domain Of The Human
Zo-1 Maguk Protein
Length = 124
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 1 MDMKGITREEAVLFLLSL--QDQIHLIVQNRRDEYEHVVASQRG 42
+D I REEAVLFLL L +++ ++ Q ++D Y +V S G
Sbjct: 81 VDFTNIIREEAVLFLLDLPKGEEVTILAQKKKDVYRRIVESDVG 124
>pdb|2DF6|A Chain A, Crystal Structure Of The Sh3 Domain Of Betapix In
Complex With A High Affinity Peptide From Pak2
pdb|2DF6|B Chain B, Crystal Structure Of The Sh3 Domain Of Betapix In
Complex With A High Affinity Peptide From Pak2
pdb|2P4R|A Chain A, Structural Basis For A Novel Interaction Between Aip4
And Beta-pix
pdb|2G6F|X Chain X, Crystal Structure Of The Sh3 Domain Of Betapix In
Complex With A High Affinity Peptide From Pak2
Length = 59
Score = 35.0 bits (79), Expect = 0.054, Method: Composition-based stats.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELE 75
++ FN+ Q + E+SF KGDV HV +E
Sbjct: 7 VRAKFNFQQTNEDELSFSKGDVIHVTRVE 35
>pdb|1IO6|A Chain A, Growth Factor Receptor-Bound Protein 2 (Grb2) C-Terminal
Sh3 Domain Complexed With A Ligand Peptide (Nmr,
Minimized Mean Structure)
pdb|1GFC|A Chain A, Solution Structure And Ligand-Binding Site Of The C-
Terminal Sh3 Domain Of Grb2
pdb|1GFD|A Chain A, Solution Structure And Ligand-Binding Site Of The C-
Terminal Sh3 Domain Of Grb2
Length = 59
Score = 34.7 bits (78), Expect = 0.064, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 21/30 (70%)
Query: 44 SFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
S +++ F++D E GE+ FR+GD HV++
Sbjct: 2 STYVQALFDFDPQEDGELGFRRGDFIHVMD 31
>pdb|1GCQ|A Chain A, Crystal Structure Of Vav And Grb2 Sh3 Domains
pdb|1GCQ|B Chain B, Crystal Structure Of Vav And Grb2 Sh3 Domains
Length = 61
Score = 34.7 bits (78), Expect = 0.065, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 21/30 (70%)
Query: 44 SFHIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
S +++ F++D E GE+ FR+GD HV++
Sbjct: 2 STYVQALFDFDPQEDGELGFRRGDFIHVMD 31
>pdb|1ZSG|A Chain A, Beta Pix-Sh3 Complexed With An Atypical Peptide From
Alpha- Pak
Length = 65
Score = 34.3 bits (77), Expect = 0.082, Method: Composition-based stats.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELE 75
++ FN+ Q + E+SF KGDV HV +E
Sbjct: 11 VRAKFNFQQTNEDELSFSKGDVIHVTRVE 39
>pdb|2AK5|A Chain A, Beta Pix-Sh3 Complexed With A Cbl-B Peptide
pdb|2AK5|B Chain B, Beta Pix-Sh3 Complexed With A Cbl-B Peptide
Length = 64
Score = 34.3 bits (77), Expect = 0.084, Method: Composition-based stats.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELE 75
++ FN+ Q + E+SF KGDV HV +E
Sbjct: 9 VRAKFNFQQTNEDELSFSKGDVIHVTRVE 37
>pdb|2VWF|A Chain A, Grb2 Sh3c (2)
pdb|2W0Z|A Chain A, Grb2 Sh3c (3)
Length = 58
Score = 34.3 bits (77), Expect = 0.096, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 46 HIKTHFNYDQPEKGEMSFRKGDVFHVIE 73
+++ F++D E GE+ FR+GD HV++
Sbjct: 4 YVQALFDFDPQEDGELGFRRGDFIHVMD 31
>pdb|3SHU|A Chain A, Crystal Structure Of Zo-1 Pdz3
pdb|3SHU|B Chain B, Crystal Structure Of Zo-1 Pdz3
Length = 95
Score = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 25/39 (64%), Gaps = 2/39 (5%)
Query: 1 MDMKGITREEAVLFLLSLQ--DQIHLIVQNRRDEYEHVV 37
+D I REEAVLFLL L +++ ++ Q ++D Y +V
Sbjct: 56 VDFTNIIREEAVLFLLDLPKGEEVTILAQKKKDVYRRIV 94
>pdb|2VVK|A Chain A, Grb2 Sh3c (1)
Length = 56
Score = 33.5 bits (75), Expect = 0.16, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIE 73
++ F++D E GE+ FR+GD HV++
Sbjct: 3 VQALFDFDPQEDGELGFRRGDFIHVMD 29
>pdb|1GRI|A Chain A, Grb2
pdb|1GRI|B Chain B, Grb2
Length = 217
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 6/43 (13%)
Query: 46 HIKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKKCSG 88
+++ F++D E GE+ FR+GD HV M+ SD G
Sbjct: 160 YVQALFDFDPQEDGELGFRRGDFIHV------MDNSDPNWWKG 196
>pdb|2X3W|D Chain D, Structure Of Mouse Syndapin I (Crystal Form 2)
pdb|2X3X|D Chain D, Structure Of Mouse Syndapin I (Crystal Form 1)
pdb|2X3X|E Chain E, Structure Of Mouse Syndapin I (Crystal Form 1)
Length = 60
Score = 30.8 bits (68), Expect = 0.96, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 14/60 (23%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKKCSGIIRLSAIRDMMDRGRHGL 106
++ ++YD E+ E+SF+ GD EL + EE + C G +D G+ GL
Sbjct: 6 VRALYDYDGQEQDELSFKAGD-----ELTKLGEEDEQGWCRG---------RLDSGQLGL 51
>pdb|1X6G|A Chain A, Solution Structures Of The Sh3 Domain Of Human
Megakaryocyte-Associated Tyrosine-Protein Kinase
Length = 81
Score = 29.6 bits (65), Expect = 2.3, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 49 THFNYDQPEKGEMSFRKGDVFHVIE 73
T + +P+ GE++FRKGDV ++E
Sbjct: 22 TKCEHTRPKPGELAFRKGDVVTILE 46
>pdb|2FUC|A Chain A, Human Alpha-Phosphomannomutase 1 With Mg2+ Cofactor Bound
pdb|2FUE|A Chain A, Human Alpha-Phosphomannomutase 1 With D-Mannose
1-Phosphate And Mg2+ Cofactor Bound
Length = 262
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 47/109 (43%), Gaps = 9/109 (8%)
Query: 10 EAVLFLLSLQDQIHLIVQNRRDEYEHVVASQRGDSFHIKTHFNYDQPEKGEMSFRKGDVF 69
E FL L+ ++ + V D + +A Q GD + F+Y E G + ++ G +
Sbjct: 34 EVAAFLQKLRSRVQIGVVGGSDYCK--IAEQLGDGDEVIEKFDYVFAENGTVQYKHGRLL 91
Query: 70 HVIELENMMEESDSKK----C---SGIIRLSAIRDMMDRGRHGLLDITP 111
++N + E + C ++RL R R+G L+I+P
Sbjct: 92 SKQTIQNHLGEELLQDLINFCLSYXALLRLPKKRGTFIEFRNGXLNISP 140
>pdb|1UJY|A Chain A, Solution Structure Of Sh3 Domain In RacCDC42 GUANINE
Nucleotide Exchange Factor(Gef) 6
Length = 76
Score = 28.9 bits (63), Expect = 3.5, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 47 IKTHFNYDQPEKGEMSFRKGDVFHVIELE 75
+K FN+ Q + E+S KGD+ +V +E
Sbjct: 13 VKARFNFKQTNEDELSVCKGDIIYVTRVE 41
>pdb|3HAJ|A Chain A, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121
Lattice)
pdb|3HAJ|B Chain B, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121
Lattice)
Length = 486
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 14/65 (21%)
Query: 42 GDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIELENMMEESDSKKCSGIIRLSAIRDMMDR 101
G ++ ++Y+ E E+SF+ GD EL M +E + C G +D
Sbjct: 426 GTEVRVRALYDYEGQEHDELSFKAGD-----ELTKMEDEDEQGWCKG---------RLDN 471
Query: 102 GRHGL 106
G+ GL
Sbjct: 472 GQVGL 476
>pdb|2JTE|A Chain A, Third Sh3 Domain Of Cd2ap
pdb|2KRO|A Chain A, Rdc Refined High Resolution Structure Of The Third Sh3
Domain Of Cd2ap
Length = 64
Score = 27.7 bits (60), Expect = 7.6, Method: Composition-based stats.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 42 GDSFHIKTHFNYDQPEKGEMSFRKGDVFHVIELE 75
G + +T F Y + E++FR+G++ H+I E
Sbjct: 4 GAKEYCRTLFPYTGTNEDELTFREGEIIHLISKE 37
>pdb|4IFD|C Chain C, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 393
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 93 SAIRDMMDRGRHGLLDITPNAVDRLNYAQFYPIV 126
++I+D+ D G L ++T NYA YP+V
Sbjct: 100 ASIKDLDDFGEEELFEVTKEEDIIANYASVYPVV 133
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
0.317 0.132 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,528,580
Number of Sequences: 62578
Number of extensions: 268278
Number of successful extensions: 897
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 854
Number of HSP's gapped (non-prelim): 45
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)