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= 030325
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JYH|A Chain A, Human Dipeptidyl Peptidase Dpp7
pdb|3JYH|B Chain B, Human Dipeptidyl Peptidase Dpp7
pdb|3JYH|C Chain C, Human Dipeptidyl Peptidase Dpp7
pdb|3JYH|D Chain D, Human Dipeptidyl Peptidase Dpp7
pdb|3N0T|A Chain A, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
pdb|3N0T|B Chain B, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
pdb|3N0T|C Chain C, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
pdb|3N0T|D Chain D, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
Length = 469
Score = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 55/114 (48%), Gaps = 6/114 (5%)
Query: 48 SATISKDFQTFYYNQTLDHFNYRPESYSTFQQRYVINFKYWGGGAGADANAPIFVYLGAE 107
A FQ ++ Q LDHFN+ TF QR++++ ++W G G PIF Y G E
Sbjct: 1 GAMDDPGFQERFFQQRLDHFNFERFGNKTFPQRFLVSDRFWVRGEG-----PIFFYTGNE 55
Query: 108 ESLDGDISVIGFLTDNAARFNALLVYIEILWEINSIWVKKRSLEKRKHSWLFQL 161
+ + F+ + AA ALLV+ E + S+ +S + R H+ L +
Sbjct: 56 GDVWAFANNSAFVAELAAERGALLVFAEHRYYGKSLPFGAQSTQ-RGHTELLTV 108
>pdb|4EBB|A Chain A, Structure Of Dpp2
pdb|4EBB|B Chain B, Structure Of Dpp2
Length = 472
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 54/107 (50%), Gaps = 6/107 (5%)
Query: 55 FQTFYYNQTLDHFNYRPESYSTFQQRYVINFKYWGGGAGADANAPIFVYLGAEESLDGDI 114
FQ ++ Q LDHFN+ TF QR++++ ++W G G PIF Y G E +
Sbjct: 5 FQERFFQQRLDHFNFERFGNKTFPQRFLVSDRFWVRGEG-----PIFFYTGNEGDVWAFA 59
Query: 115 SVIGFLTDNAARFNALLVYIEILWEINSIWVKKRSLEKRKHSWLFQL 161
+ F+ + AA ALLV+ E + S+ +S + R H+ L +
Sbjct: 60 NNSAFVAELAAERGALLVFAEHRYYGKSLPFGAQSTQ-RGHTELLTV 105
>pdb|3N2Z|B Chain B, The Structure Of Human Prolylcarboxypeptidase At 2.80
Angstroms Resolution
Length = 446
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 48/103 (46%), Gaps = 7/103 (6%)
Query: 53 KDFQTFYYNQTLDHFNYRPESYSTFQQRYVINFKYWGGGAGADANAPIFVYLGAEESLDG 112
K++ Y+ Q +DHF + + TF QRY++ KYW G+ I Y G E +
Sbjct: 1 KNYSVLYFQQKVDHFGFN--TVKTFNQRYLVADKYWKKNGGS-----ILFYTGNEGDIIW 53
Query: 113 DISVIGFLTDNAARFNALLVYIEILWEINSIWVKKRSLEKRKH 155
+ GF+ D A A+LV+ E + S+ S + +H
Sbjct: 54 FCNNTGFMWDVAEELKAMLVFAEHRYYGESLPFGDNSFKDSRH 96
>pdb|2GAE|A Chain A, Crystal Structure Of Mlta From E. Coli
Length = 346
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 9 QWLLYIFTVISSLQVSAARFNIP--RLSPTRGTILQNPEILSATISKDFQTFYYNQTLDH 66
Q+ Y VI + F P R+ P RG + EI + +S + Y N +D+
Sbjct: 98 QFTGYYTPVIQARHTRQGEFQYPIYRMPPKRGRLPSRAEIYAGALSDKYILAYSNSLMDN 157
Query: 67 F--NYRPESYSTFQQRYVINFKYWGGGAG 93
F + + Y F +NF + G G
Sbjct: 158 FIMDVQGSGYIDFGDGSPLNFFSYAGKNG 186
>pdb|2AE0|X Chain X, Crystal Structure Of Mlta From Escherichia Coli Reveals A
Unique Lytic Transglycosylase Fold
Length = 345
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 9 QWLLYIFTVISSLQVSAARFNIP--RLSPTRGTILQNPEILSATISKDFQTFYYNQTLDH 66
Q+ Y VI + F P R+ P RG + EI + +S + Y N +D+
Sbjct: 97 QFTGYYTPVIQARHTRQGEFQYPIYRMPPKRGRLSSRAEIYAGALSDKYILAYSNSLMDN 156
Query: 67 F--NYRPESYSTFQQRYVINFKYWGGGAG 93
F + + Y F +NF + G G
Sbjct: 157 FIMDVQGSGYIDFGDGSPLNFFSYAGKNG 185
>pdb|2PJJ|A Chain A, E. Coli Lytic Transglycosylase Mlta-D308a In Apo-1 Form
Length = 345
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 9 QWLLYIFTVISSLQVSAARFNIP--RLSPTRGTILQNPEILSATISKDFQTFYYNQTLDH 66
Q+ Y VI + F P R+ P RG + EI + +S + Y N +D+
Sbjct: 97 QFTGYYTPVIQARHTRQGEFQYPIYRMPPKRGRLSSRAEIYAGALSDKYILAYSNSLMDN 156
Query: 67 F--NYRPESYSTFQQRYVINFKYWGGGAG 93
F + + Y F +NF + G G
Sbjct: 157 FIMDVQGSGYIDFGDGSPLNFFSYAGKNG 185
>pdb|2PIC|A Chain A, E. Coli Lytic Transglycosylase Mlta-D308a In Apo-2 Form
Length = 345
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 9 QWLLYIFTVISSLQVSAARFNIP--RLSPTRGTILQNPEILSATISKDFQTFYYNQTLDH 66
Q+ Y VI + F P R+ P RG + EI + +S + Y N +D+
Sbjct: 97 QFTGYYTPVIQARHTRQGEFQYPIYRMPPKRGRLSSRAEIYAGALSDKYILAYSNSLMDN 156
Query: 67 F--NYRPESYSTFQQRYVINFKYWGGGAG 93
F + + Y F +NF + G G
Sbjct: 157 FIMDVQGSGYIDFGDGSPLNFFSYAGKNG 185
>pdb|2PI8|A Chain A, Crystal Structure Of E. Coli Mlta With Bound Chitohexaose
pdb|2PI8|B Chain B, Crystal Structure Of E. Coli Mlta With Bound Chitohexaose
pdb|2PI8|C Chain C, Crystal Structure Of E. Coli Mlta With Bound Chitohexaose
pdb|2PI8|D Chain D, Crystal Structure Of E. Coli Mlta With Bound Chitohexaose
Length = 345
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 34/89 (38%), Gaps = 4/89 (4%)
Query: 9 QWLLYIFTVISSLQVSAARFNIP--RLSPTRGTILQNPEILSATISKDFQTFYYNQTLDH 66
Q+ Y VI + F P R P RG + EI + +S + Y N D+
Sbjct: 97 QFTGYYTPVIQARHTRQGEFQYPIYRXPPKRGRLSSRAEIYAGALSDKYILAYSNSLXDN 156
Query: 67 F--NYRPESYSTFQQRYVINFKYWGGGAG 93
F + + Y F +NF + G G
Sbjct: 157 FIXDVQGSGYIDFGDGSPLNFFSYAGKNG 185
>pdb|3NVQ|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
pdb|3NVQ|E Chain E, Molecular Mechanism Of Guidance Cue Recognition
Length = 590
Score = 28.9 bits (63), Expect = 1.8, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 12/69 (17%)
Query: 17 VISSLQVSAARFNIPRLSPTRG--------TILQNPEILSATISKDFQTF----YYNQTL 64
V S+++ IPR RG T++QNP+ + ATI Q + YY
Sbjct: 143 VYSTIRKQEYNGKIPRFRRIRGESELYTSDTVMQNPQFIKATIVHQDQAYDDKIYYFFRE 202
Query: 65 DHFNYRPES 73
D+ + PE+
Sbjct: 203 DNPDKNPEA 211
>pdb|3PNZ|A Chain A, Crystal Structure Of The Lactonase Lmo2620 From Listeria
Monocytogenes
pdb|3PNZ|B Chain B, Crystal Structure Of The Lactonase Lmo2620 From Listeria
Monocytogenes
pdb|3PNZ|C Chain C, Crystal Structure Of The Lactonase Lmo2620 From Listeria
Monocytogenes
pdb|3PNZ|D Chain D, Crystal Structure Of The Lactonase Lmo2620 From Listeria
Monocytogenes
pdb|3PNZ|E Chain E, Crystal Structure Of The Lactonase Lmo2620 From Listeria
Monocytogenes
pdb|3PNZ|F Chain F, Crystal Structure Of The Lactonase Lmo2620 From Listeria
Monocytogenes
Length = 330
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 85 FKYWGGGAGADANA----PIFVYLGAEESLDGDISVIGFLTDNAAR 126
+K++G G G + A P F+ E+ DG+ V F DN AR
Sbjct: 279 YKHYGHGPGLEYIAKKWVPRFIDEANEKGFDGEKLVKKFFVDNPAR 324
>pdb|3U7W|H Chain H, Crystal Structure Of Nih45-46 Fab
pdb|3U7Y|H Chain H, Structure Of Nih45-46 Fab In Complex With Gp120 Of 93th057
Hiv
Length = 229
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 7/93 (7%)
Query: 37 RGTILQNPEILSATISKDFQTFYYNQTLDHFNYRPESYSTFQQRYVINFKYWGGGA---- 92
+G + ++ S T + ++ + T +F R + Y T + Y +F++WG GA
Sbjct: 65 QGRVTMTRDVYSDTAFLELRSLTSDDTAVYFCTRGK-YCTARDYYNWDFEHWGRGAPVTV 123
Query: 93 -GADANAP-IFVYLGAEESLDGDISVIGFLTDN 123
A P +F + +S G + +G L +
Sbjct: 124 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKD 156
>pdb|2Z2F|A Chain A, X-Ray Crystal Structure Of Bovine Stomach Lysozyme
Length = 129
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 68 NYRPESYSTFQQRYVINFKYWGGGAGADANAPIFVYLGAEESLDGDIS 115
NY P S ST + IN K+W G NA ++ E ++ DI+
Sbjct: 44 NYNPSSESTDYGIFQINSKWWCND-GKTPNAVDGCHVSCSELMENDIA 90
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 0.137 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,362,394
Number of Sequences: 62578
Number of extensions: 214197
Number of successful extensions: 328
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 319
Number of HSP's gapped (non-prelim): 12
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)