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= psy6720
(182 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MK6|A Chain A, Substrate And Inhibitor Binding To Pank
pdb|3MK6|B Chain B, Substrate And Inhibitor Binding To Pank
pdb|3MK6|C Chain C, Substrate And Inhibitor Binding To Pank
pdb|3MK6|D Chain D, Substrate And Inhibitor Binding To Pank
Length = 376
Score = 187 bits (476), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 95/126 (75%), Positives = 108/126 (85%), Gaps = 7/126 (5%)
Query: 33 SFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGM------FSFGHMNSKEKRESVSRED 86
SFEEA+E+A+ GD+T+ DKLVRDIYGG YERF G+ SFG+M KEKRESVS+ED
Sbjct: 238 SFEEALEMASKGDSTQADKLVRDIYGGDYERF-GLPGWAVASSFGNMIYKEKRESVSKED 296
Query: 87 LARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKA 146
LARATLVTITNNIGS+ARM A+NE IN+VVFVGNFLRVN +SMKLLAYA+DYWSKG KA
Sbjct: 297 LARATLVTITNNIGSVARMCAVNEKINRVVFVGNFLRVNTLSMKLLAYALDYWSKGQLKA 356
Query: 147 LFLEHE 152
LFLEHE
Sbjct: 357 LFLEHE 362
>pdb|3SMS|A Chain A, Human Pantothenate Kinase 3 In Complex With A Pantothenate
Analog
Length = 382
Score = 187 bits (476), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 95/126 (75%), Positives = 108/126 (85%), Gaps = 7/126 (5%)
Query: 33 SFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGM------FSFGHMNSKEKRESVSRED 86
SFEEA+E+A+ GD+T+ DKLVRDIYGG YERF G+ SFG+M KEKRESVS+ED
Sbjct: 240 SFEEALEMASKGDSTQADKLVRDIYGGDYERF-GLPGWAVASSFGNMIYKEKRESVSKED 298
Query: 87 LARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKA 146
LARATLVTITNNIGS+ARM A+NE IN+VVFVGNFLRVN +SMKLLAYA+DYWSKG KA
Sbjct: 299 LARATLVTITNNIGSVARMCAVNEKINRVVFVGNFLRVNTLSMKLLAYALDYWSKGQLKA 358
Query: 147 LFLEHE 152
LFLEHE
Sbjct: 359 LFLEHE 364
>pdb|2I7P|A Chain A, Crystal Structure Of Human Pank3 In Complex With Accoa
pdb|2I7P|B Chain B, Crystal Structure Of Human Pank3 In Complex With Accoa
pdb|2I7P|C Chain C, Crystal Structure Of Human Pank3 In Complex With Accoa
pdb|2I7P|D Chain D, Crystal Structure Of Human Pank3 In Complex With Accoa
Length = 362
Score = 187 bits (476), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 95/126 (75%), Positives = 108/126 (85%), Gaps = 7/126 (5%)
Query: 33 SFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGM------FSFGHMNSKEKRESVSRED 86
SFEEA+E+A+ GD+T+ DKLVRDIYGG YERF G+ SFG+M KEKRESVS+ED
Sbjct: 224 SFEEALEMASKGDSTQADKLVRDIYGGDYERF-GLPGWAVASSFGNMIYKEKRESVSKED 282
Query: 87 LARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKA 146
LARATLVTITNNIGS+ARM A+NE IN+VVFVGNFLRVN +SMKLLAYA+DYWSKG KA
Sbjct: 283 LARATLVTITNNIGSVARMCAVNEKINRVVFVGNFLRVNTLSMKLLAYALDYWSKGQLKA 342
Query: 147 LFLEHE 152
LFLEHE
Sbjct: 343 LFLEHE 348
>pdb|2I7N|A Chain A, Crystal Structure Of Human Pank1 Alpha: The Catalytic Core
Domain In Complex With Accoa
pdb|2I7N|B Chain B, Crystal Structure Of Human Pank1 Alpha: The Catalytic Core
Domain In Complex With Accoa
Length = 360
Score = 186 bits (473), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 93/126 (73%), Positives = 109/126 (86%), Gaps = 7/126 (5%)
Query: 33 SFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGM------FSFGHMNSKEKRESVSRED 86
+FEEA+E+A GD+T VDKLV+DIYGG YERF G+ SFG+M SKEKR+S+S+ED
Sbjct: 222 TFEEALEMAAKGDSTNVDKLVKDIYGGDYERF-GLQGSAVASSFGNMMSKEKRDSISKED 280
Query: 87 LARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKA 146
LARATLVTITNNIGSIARM A+NENI++VVFVGNFLR+N +SMKLLAYAMD+WSKG KA
Sbjct: 281 LARATLVTITNNIGSIARMCALNENIDRVVFVGNFLRINMVSMKLLAYAMDFWSKGQLKA 340
Query: 147 LFLEHE 152
LFLEHE
Sbjct: 341 LFLEHE 346
>pdb|3SMP|A Chain A, Monoclinic Crystal Structure Of Human Pantothenate Kinase
1 Alpha
pdb|3SMP|B Chain B, Monoclinic Crystal Structure Of Human Pantothenate Kinase
1 Alpha
Length = 386
Score = 186 bits (473), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 93/126 (73%), Positives = 109/126 (86%), Gaps = 7/126 (5%)
Query: 33 SFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGM------FSFGHMNSKEKRESVSRED 86
+FEEA+E+A GD+T VDKLV+DIYGG YERF G+ SFG+M SKEKR+S+S+ED
Sbjct: 244 TFEEALEMAAKGDSTNVDKLVKDIYGGDYERF-GLQGSAVASSFGNMMSKEKRDSISKED 302
Query: 87 LARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKA 146
LARATLVTITNNIGSIARM A+NENI++VVFVGNFLR+N +SMKLLAYAMD+WSKG KA
Sbjct: 303 LARATLVTITNNIGSIARMCALNENIDRVVFVGNFLRINMVSMKLLAYAMDFWSKGQLKA 362
Query: 147 LFLEHE 152
LFLEHE
Sbjct: 363 LFLEHE 368
>pdb|3G9A|B Chain B, Green Fluorescent Protein Bound To Minimizer Nanobody
Length = 139
Score = 33.5 bits (75), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 72 HMNSKEKRESVSREDLARATLVTITNNIGS--IARMSAINENINKVVFVGNFLRVNPISM 129
+ S + R ++SR+D A+ T+ N+ S AR ++ ++ +VG + +
Sbjct: 61 YAGSVKGRFTISRDD-AKNTVYLQMVNLKSEDTARYYCAADSGTQLGYVG------AVGL 113
Query: 130 KLLAYAMDYWSKGTQ 144
L Y MDYW KGTQ
Sbjct: 114 SCLDYVMDYWGKGTQ 128
>pdb|2R6G|F Chain F, The Crystal Structure Of The E. Coli Maltose Transporter
pdb|3PUY|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUZ|F Chain F, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PV0|F Chain F, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PUV|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUW|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUX|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3RLF|F Chain F, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
Length = 514
Score = 29.6 bits (65), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 68 FSFGHMNSKEKRESVSREDLARATLVTITNNIGSIARMSAINENINKVV 116
F FG + +E+ ++ + RA L IT N +++ ++AI + NKV+
Sbjct: 149 FKFGGEQKLQLKETTAQPEGERANLRVITQNRQALSDITAILPDGNKVM 197
>pdb|3FH6|F Chain F, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|H Chain H, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
Length = 480
Score = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 68 FSFGHMNSKEKRESVSREDLARATLVTITNNIGSIARMSAINENINKVV 116
F FG + +E+ ++ + RA L IT N +++ ++AI + NKV+
Sbjct: 115 FKFGGEQKLQLKETTAQPEGERANLRVITQNRQALSDITAILPDGNKVM 163
>pdb|1QFU|H Chain H, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 223
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 14/72 (19%)
Query: 72 HMNSKEKRESVSREDLARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKL 131
H N K K +++ D + +T + ++S++ + V + FL++ I
Sbjct: 59 HYNQKFKDKAILTVDRSSST---------AYMQLSSLTSEDSAVYYCTRFLQITTI---- 105
Query: 132 LAYAMDYWSKGT 143
Y MDYW +GT
Sbjct: 106 -IYGMDYWGQGT 116
>pdb|3VI3|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 218
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 88 ARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGT 143
+AT T T++ + ++S++ + V + S L YAMDYW +GT
Sbjct: 66 GKATFTTDTSSNTAYMQLSSLTSEDSAVYYC---------SRALALYAMDYWGQGT 112
>pdb|1WN7|A Chain A, Crystal Structure Of Archaeal Family B Dna Polymerase
Mutant
Length = 774
Score = 28.1 bits (61), Expect = 2.5, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 123 RVNPISMKLLAYAMDYWSKGTQKALFLEHEVCIIGIFDHWTSHPAFIDSYKPGVDF 178
RV + K L ++ W L+ H + I D HPA ID Y+ + F
Sbjct: 67 RVEKVQKKFLGRPVEVWK------LYFTHPQDVPAIRDKIREHPAVIDIYEYDIPF 116
>pdb|1WNS|A Chain A, Crystal Structure Of Family B Dna Polymerase From
Hyperthermophilic Archaeon Pyrococcus Kodakaraensis Kod1
Length = 774
Score = 28.1 bits (61), Expect = 2.5, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 123 RVNPISMKLLAYAMDYWSKGTQKALFLEHEVCIIGIFDHWTSHPAFIDSYKPGVDF 178
RV + K L ++ W L+ H + I D HPA ID Y+ + F
Sbjct: 67 RVEKVQKKFLGRPVEVWK------LYFTHPQDVPAIRDKIREHPAVIDIYEYDIPF 116
>pdb|3VFG|H Chain H, Crystal Structure Of Monoclonal Anitbody 3f8 Fab Fragment
That Binds To Gd2 Ganglioside
Length = 219
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 9/58 (15%)
Query: 95 ITN-NIGSIARMSAINENINKVVFVG-NFLRVNPISMKLLA-------YAMDYWSKGT 143
ITN N ++R+S +N VF+ N L+++ +M A YA+DYW +GT
Sbjct: 56 ITNYNSAFMSRLSISKDNSKSQVFLKMNSLQIDDTAMYYCASRGGHYGYALDYWGQGT 113
>pdb|1IL1|A Chain A, Crystal Structure Of G3-519, An Anti-Hiv Monoclonal
Antibody
Length = 219
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 89 RATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGT 143
+AT+ T++ + ++S++ + V + N IS YA+DYW +GT
Sbjct: 65 KATMTADTSSNTAYLQLSSLTSEASAVYYC------NAISTTRDYYALDYWGQGT 113
>pdb|3ESU|F Chain F, Crystal Structure Of Anthrax-Neutralizing Single-Chain
Antibody 14b7
Length = 250
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 88 ARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGT 143
+ATL ++ + ++S++ + V F LL YAMDYW +GT
Sbjct: 197 GKATLTADKSSSTAYMQLSSLTSVDSAVYFCAR--------SGLLRYAMDYWGQGT 244
>pdb|3ET9|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
1h
Length = 252
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 88 ARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGT 143
+ATL ++ + ++S++ + V F LL YAMDYW +GT
Sbjct: 199 GKATLTADKSSSTAYMQLSSLTSVDSAVYFCAR--------SGLLRYAMDYWGQGT 246
>pdb|3RAJ|H Chain H, Crystal Structure Of Human Cd38 In Complex With The Fab
Fragment Of Antibody Hb7
Length = 220
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 98 NIGSIARMSAINENI-NKVVFVGNFLRVNPISMKLLA-------YAMDYWSKGT 143
N ++R+S +N ++V F N L+ + ++ A YAMDYW +GT
Sbjct: 61 NAAFMSRLSITKDNSKSQVFFKMNSLQADDTAIYFCAKTLITTGYAMDYWGQGT 114
>pdb|3ESV|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
M18
pdb|3ESV|G Chain G, Crystal Structure Of The Engineered Neutralizing Antibody
M18
pdb|3ETB|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
pdb|3ETB|G Chain G, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
pdb|3ETB|H Chain H, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
pdb|3ETB|I Chain I, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
Length = 252
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 131 LLAYAMDYWSKGT 143
LL YAMDYW +GT
Sbjct: 234 LLRYAMDYWGQGT 246
>pdb|1QHT|A Chain A, Dna Polymerase From Thermococcus Sp. 9on-7 Archaeon
Length = 775
Score = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 123 RVNPISMKLLAYAMDYWSKGTQKALFLEHEVCIIGIFDHWTSHPAFIDSYKPGVDF 178
R + K L ++ W L+ H + I D +HPA +D Y+ + F
Sbjct: 67 RAEKVQKKFLGRPIEVWK------LYFNHPQDVPAIRDRIRAHPAVVDIYEYDIPF 116
>pdb|4I78|C Chain C, Crystal Structure Of A Subtype H17 Hemagglutinin Homologue
From A/little Yellow-shouldered Bat/guatemala/060/2010
(h17n10)
pdb|4I78|D Chain D, Crystal Structure Of A Subtype H17 Hemagglutinin Homologue
From A/little Yellow-shouldered Bat/guatemala/060/2010
(h17n10)
Length = 181
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 56 IYGGSYERFLGMFSFGHMNSKEKRESVSREDLARATLVTITNNIGSIARM--SAINENIN 113
I GG G + + H N + + +E +A + ITN + SI S NI
Sbjct: 10 IEGGWQGMIDGWYGYHHENQEGSGYAADKEATQKA-VDGITNKVNSIIDKMNSQFESNIK 68
Query: 114 KVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKALFLEHE 152
+ F LR+ +S ++ +D WS T+ + LE+E
Sbjct: 69 E--FNRLELRIQHLSDRVDDALLDIWSYNTELLVLLENE 105
>pdb|3TV9|A Chain A, Crystal Structure Of Putative Peptide Maturation Protein
From Shigella Flexneri
Length = 457
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 33 SFEEAIELATSGDNT--KVDKLVRDIYGGSYERFLGMFSFGH 72
S +EAIELA + + DK + + GGS+ G+ FG+
Sbjct: 143 SPDEAIELAARAEQAALQADKRITNTEGGSFNSHYGVKVFGN 184
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
0.321 0.137 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,707,254
Number of Sequences: 62578
Number of extensions: 166549
Number of successful extensions: 663
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 647
Number of HSP's gapped (non-prelim): 23
length of query: 182
length of database: 14,973,337
effective HSP length: 93
effective length of query: 89
effective length of database: 9,153,583
effective search space: 814668887
effective search space used: 814668887
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)