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= psy15469
(297 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AQT|A Chain A, Laminin Gamma1 Ln-Le1-2 Structure
Length = 375
Score = 304 bits (778), Expect = 4e-83, Method: Compositional matrix adjust.
Identities = 154/300 (51%), Positives = 200/300 (66%), Gaps = 16/300 (5%)
Query: 4 RCIPPFENAAFSASVESTNTCGYQNGVPQPTRFCVQSGTHVTANTCDYC----YEDTHPV 59
RC+P F NAAF+ +V +TNTCG P +CVQ+G +C C H
Sbjct: 18 RCMPEFVNAAFNVTVVATNTCG-----TPPEEYCVQTGVTGVTKSCHLCDAGQQHLQHGA 72
Query: 60 RYLTDLSNT--TTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFAIY 117
+LTD +N TTWWQS TM GVQ+PN +N+TL GK FD+TYVRL F + RPESFAIY
Sbjct: 73 AFLTDYNNQADTTWWQSQTMLAGVQYPNSINLTLHLGKAFDITYVRLKFHTSRPESFAIY 132
Query: 118 KKTYENSSWTPFQFYSASCQETYGLPDDNSGKANDSDTRVFCTSEYSDLSPLTGGAVPFA 177
K+T E+ W P+Q+YS SC+ TY + + + + CT E+SD+SPLTGG V F+
Sbjct: 133 KRTREDGPWIPYQYYSGSCENTYSKANRGFIRTGGDEQQALCTDEFSDISPLTGGNVAFS 192
Query: 178 TLEGRYRAKTFSYNLNLQEFVTATEIRITLDRLNTFYDELFLDPSVLRSYFYAIADISVG 237
TLEGR A F + LQE+VTAT+IR+TL+RLNTF DE+F +P VL+SY+YAI+D +VG
Sbjct: 193 TLEGRPSAYNFDNSPVLQEWVTATDIRVTLNRLNTFGDEVFNEPKVLKSYYYAISDFAVG 252
Query: 238 ARCKCNGHASECPYVRQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRA-SDDANEC 296
RCKCNGHASEC + + +C C+HNT G DC +C PF+ND PWRRA ++ A+EC
Sbjct: 253 GRCKCNGHASEC----VKNEFDKLMCNCKHNTYGVDCEKCLPFFNDRPWRRATAESASEC 308
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 240 CKCNGHASEC---PYVRQSDGSTRRVCRCEHNTAGPDCNEC 277
C CNG + EC P + +S G C NT G C C
Sbjct: 311 CDCNGRSQECYFDPELYRSTGHGGHCTNCRDNTDGAKCERC 351
>pdb|2Y38|A Chain A, Laminin Alpha5 Chain N-Terminal Fragment
Length = 403
Score = 175 bits (443), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 116/318 (36%), Positives = 162/318 (50%), Gaps = 34/318 (10%)
Query: 7 PPFENAAFSASVESTNTCGYQ---NGVPQPTR--FCVQSGTHVTANT---------CDYC 52
PP+ N A A + ++ TCG + V +PT +C G V CD C
Sbjct: 13 PPYFNLAEGARITASATCGEEAPTRSVSRPTEDLYCKLVGGPVAGGDPAQTIQGQYCDIC 72
Query: 53 ----YEDTHPVRYLTDLSNTTTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFW- 107
HPV D T WWQS + G+++ N+VN+TL G+ F V YV + F
Sbjct: 73 TAANSNKAHPVSNAID--GTERWWQSPPLSRGLEY-NEVNVTLDLGQVFHVAYVLIKFAN 129
Query: 108 SPRPESFAIYKKTYENSSWTPFQFYSAS---CQETYGLPDDNSGKANDSDTRVFCTSEYS 164
SPRP+ + + + T ++ P+QF+++S C E +G P D D V CT+EYS
Sbjct: 130 SPRPDLWVLERSTDFGHTYQPWQFFASSKRDCLERFG-PRTLERITQDDD--VICTTEYS 186
Query: 165 DLSPLTGGAVPFATLEGRYRAKTFSYNLNLQEFVTATEIRITLDRLNTFYDEL----FLD 220
+ PL G + + + GR A FSY+ L++F AT IR+ R NT L D
Sbjct: 187 RIVPLENGEIVVSLVNGRPGALNFSYSPLLRDFTKATNIRLRFLRTNTLLGHLMGKALRD 246
Query: 221 PSVLRSYFYAIADISVGARCKCNGHASECPYVRQSDGSTRRVCRCEHNTAGPDCNECAPF 280
P+V R Y+Y+I DIS+G RC C+GHA C D R C C+HNT G C+ C P
Sbjct: 247 PTVTRRYYYSIKDISIGGRCVCHGHADVCDAKDPLD-PFRLQCACQHNTCGGSCDRCCPG 305
Query: 281 YNDAPWRRA-SDDANECR 297
+N PW+ A +D ANEC+
Sbjct: 306 FNQQPWKPATTDSANECQ 323
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 13/70 (18%)
Query: 240 CKCNGHASEC---PYVRQSDGSTRR--------VCR-CEHNTAGPDCNECAPFYNDAPWR 287
C C+GHA +C P V + + S + VC C+H+T G +C C P + AP
Sbjct: 325 CNCHGHAYDCYYDPEVDRREASQNQDNVYQGGGVCLDCQHHTTGINCERCLPGFFRAP-D 383
Query: 288 RASDDANECR 297
+ D + CR
Sbjct: 384 QPLDSPHVCR 393
>pdb|3ZYJ|B Chain B, Netring1 In Complex With Ngl1
pdb|3ZYJ|D Chain D, Netring1 In Complex With Ngl1
Length = 426
Score = 130 bits (328), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 91/275 (33%), Positives = 129/275 (46%), Gaps = 25/275 (9%)
Query: 33 PTRFCVQSGTHVTANTCDYCY-EDTHPVRYLTDLS--NTTTWWQSTTMYDGVQWPNQVNI 89
P FC ++ N CD E HP + D + +T+WQS T + + P QVNI
Sbjct: 76 PETFCAMGNPYMCNNECDASTPELAHPPELMFDFEGRHPSTFWQSATWKEYPK-PLQVNI 134
Query: 90 TLKFGKTFDVT-YVRLLFWSPRPESFAIYKKTYENSSWTPFQFYSASCQETYGL-PDDNS 147
TL + KT ++T + + F S RP+ + K +W P+Q+Y+ C + + + P
Sbjct: 135 TLSWSKTIELTDNIVITFESGRPDQMILEKSLDYGRTWQPYQYYATDCLDAFHMDPKSVK 194
Query: 148 GKANDSDTRVFCTSEYSDLSPLTGGAVPF------ATLEG-RYRAKTFSYNL-----NLQ 195
+ + + CT EYS + F A G R R Y L+
Sbjct: 195 DLSQHTVLEIICTEEYSTGYTTNSKIIHFEIKDRFAFFAGPRLRNMASLYGQLDTTKKLR 254
Query: 196 EFVTATEIRITLDRLNTFYDELFLDPSVLRSYFYAIADISVGARCKCNGHASECPYVRQS 255
+F T T++RI L L E+F+D L YFYAI+DI V RCKCN HA+ C Y
Sbjct: 255 DFFTVTDLRIRL--LRPAVGEIFVDELHLARYFYAISDIKVRGRCKCNLHATVCVY---- 308
Query: 256 DGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRAS 290
+++ C CEHNT GPDC +C Y PW S
Sbjct: 309 -DNSKLTCECEHNTTGPDCGKCKKNYQGRPWSPGS 342
>pdb|3TBD|A Chain A, Crystal Structure Of Domain Vi And Le1 Of Human Netrin-G2
Length = 338
Score = 123 bits (309), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 91/278 (32%), Positives = 127/278 (45%), Gaps = 30/278 (10%)
Query: 33 PTRFCVQSGTHVTANTCDYCYED-THPVRYLTDLS--NTTTWWQSTTMYDGVQWPNQVNI 89
P RFC ++ +N CD D HP R + D T+WQS T + P + NI
Sbjct: 48 PERFCSHENPYLCSNECDASNPDLAHPPRLMFDKEEEGLATYWQSIT-WSRYPSPLEANI 106
Query: 90 TLKFGKTFDVTY-VRLLFWSPRPESFAIYKKTYENSSWTPFQFYSASCQETYGLPDDNSG 148
TL + KT ++T V + F RP + K +W P+QFY+ C E +G+ +
Sbjct: 107 TLSWNKTVELTDDVVMTFEYGRPTVMVLEKSLDNGRTWQPYQFYAEDCMEAFGMSARRAR 166
Query: 149 KANDSDT-RVFCTSEYSDLSPLTGGAVPFATLEGRYRAKTFS----YNLN---------- 193
+ S RV CT EYS + E R R F+ N++
Sbjct: 167 DMSSSSAHRVLCTEEYSRWA--GSKKEKHVRFEVRDRFAIFAGPDLRNMDNLYTRLESAK 224
Query: 194 -LQEFVTATEIRITLDRLNTFYDELFLDPSVLRSYFYAIADISVGARCKCNGHASECPYV 252
L+EF T T++R+ L L ++ L YFYAI++I V RCKCN HA+ C
Sbjct: 225 GLKEFFTLTDLRMRL--LRPALGGTYVQRENLYKYFYAISNIEVIGRCKCNLHANLCS-- 280
Query: 253 RQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRAS 290
+GS + C CEHNT GPDC +C + WR S
Sbjct: 281 -MREGSLQ--CECEHNTTGPDCGKCKKNFRTRSWRAGS 315
>pdb|3ZYG|A Chain A, Netring2 Lam And Egf1 Domains
pdb|3ZYG|B Chain B, Netring2 Lam And Egf1 Domains
pdb|3ZYI|B Chain B, Netring2 In Complex With Ngl2
Length = 353
Score = 123 bits (308), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 91/278 (32%), Positives = 127/278 (45%), Gaps = 30/278 (10%)
Query: 33 PTRFCVQSGTHVTANTCDYCYED-THPVRYLTDLS--NTTTWWQSTTMYDGVQWPNQVNI 89
P RFC ++ +N CD D HP R + D T+WQS T + P + NI
Sbjct: 65 PERFCSHENPYLCSNECDASNPDLAHPPRLMFDKEEEGLATYWQSIT-WSRYPSPLEANI 123
Query: 90 TLKFGKTFDVTY-VRLLFWSPRPESFAIYKKTYENSSWTPFQFYSASCQETYGLPDDNSG 148
TL + KT ++T V + F RP + K +W P+QFY+ C E +G+ +
Sbjct: 124 TLSWNKTVELTDDVVMTFEYGRPTVMVLEKSLDNGRTWQPYQFYAEDCMEAFGMSARRAR 183
Query: 149 KANDSDT-RVFCTSEYSDLSPLTGGAVPFATLEGRYRAKTFS----YNLN---------- 193
+ S RV CT EYS + E R R F+ N++
Sbjct: 184 DMSSSSAHRVLCTEEYSRWA--GSKKEKHVRFEVRDRFAIFAGPDLRNMDNLYTRLESAK 241
Query: 194 -LQEFVTATEIRITLDRLNTFYDELFLDPSVLRSYFYAIADISVGARCKCNGHASECPYV 252
L+EF T T++R+ L L ++ L YFYAI++I V RCKCN HA+ C
Sbjct: 242 GLKEFFTLTDLRMRL--LRPALGGTYVQRENLYKYFYAISNIEVIGRCKCNLHANLC--- 296
Query: 253 RQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRAS 290
+GS + C CEHNT GPDC +C + WR S
Sbjct: 297 SMREGSLQ--CECEHNTTGPDCGKCKKNFRTRSWRAGS 332
>pdb|4AQS|A Chain A, Laminin Beta1 Ln-Le1-4 Structure
Length = 525
Score = 120 bits (300), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 88/303 (29%), Positives = 143/303 (47%), Gaps = 36/303 (11%)
Query: 15 SASVESTNTCGYQNGVPQPTRFCVQSGTHVTANT-CDYC------YEDTHPVRYLTDLSN 67
+ + T+TCG +P +C+ S H+ + C C +E +P +L +
Sbjct: 30 AQKLSVTSTCGLH----KPEPYCIVS--HLQEDKKCFICDSRDPYHETLNPDSHLIENVV 83
Query: 68 TT-------TWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFAIYKKT 120
TT WWQS +GV+ V I L F T++ + F + RP + I + +
Sbjct: 84 TTFAPNRLKIWWQSE---NGVE---NVTIQLDLEAEFHFTHLIMTFKTFRPAAMLIERSS 137
Query: 121 YENSSWTPFQFYSASCQETYGLPDDNSGKANDSDTRVFCTSEYSDLSPLTGGAVPFATLE 180
+W +++++ C+ ++ P ++G D + C S YSD+ P T G V F L+
Sbjct: 138 DFGKAWGVYRYFAYDCESSF--PGISTGPMKKVDD-IICDSRYSDIEPSTEGEVIFRALD 194
Query: 181 GRYRAKTFSYNLNLQEFVTATEIRITLDRLNTFYDELFLDPSVLR-SYFYAIADISVGAR 239
++ + Y+ +Q + T +RI +L+T D L +R Y+YA+ D+ V
Sbjct: 195 PAFKIED-PYSPRIQNLLKITNLRIKFVKLHTLGDNLLDSRMEIREKYYYAVYDMVVRGN 253
Query: 240 CKCNGHASECPYV----RQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRASD-DAN 294
C C GHASEC V + +G C C HNT G +C C FY+D PWR A ++N
Sbjct: 254 CFCYGHASECAPVDGVNEEVEGMVHGHCMCRHNTKGLNCELCMDFYHDLPWRPAEGRNSN 313
Query: 295 ECR 297
C+
Sbjct: 314 ACK 316
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 32/58 (55%), Gaps = 5/58 (8%)
Query: 239 RCKCNGHASECPY---VRQSDGS-TRRVC-RCEHNTAGPDCNECAPFYNDAPWRRASD 291
+C CN H+S C + V + G+ + VC C+HNT G +C +C PFY P R D
Sbjct: 317 KCNCNEHSSSCHFDMAVFLATGNVSGGVCDNCQHNTMGRNCEQCKPFYFQHPERDIRD 374
>pdb|2Y08|A Chain A, Structure Of The Substrate-Free Fad-Dependent Tirandamycin
Oxidase Taml
pdb|2Y08|B Chain B, Structure Of The Substrate-Free Fad-Dependent Tirandamycin
Oxidase Taml
pdb|2Y3R|A Chain A, Structure Of The Tirandamycin-Bound Fad-Dependent
Tirandamycin Oxidase Taml In P21 Space Group
pdb|2Y3R|B Chain B, Structure Of The Tirandamycin-Bound Fad-Dependent
Tirandamycin Oxidase Taml In P21 Space Group
pdb|2Y3R|C Chain C, Structure Of The Tirandamycin-Bound Fad-Dependent
Tirandamycin Oxidase Taml In P21 Space Group
pdb|2Y3R|D Chain D, Structure Of The Tirandamycin-Bound Fad-Dependent
Tirandamycin Oxidase Taml In P21 Space Group
pdb|2Y3S|A Chain A, Structure Of The Tirandamycine-Bound Fad-Dependent
Tirandamycin Oxidase Taml In C2 Space Group
pdb|2Y3S|B Chain B, Structure Of The Tirandamycine-Bound Fad-Dependent
Tirandamycin Oxidase Taml In C2 Space Group
pdb|2Y4G|A Chain A, Structure Of The Tirandamycin-Bound Fad-Dependent
Tirandamycin Oxidase Taml In P212121 Space Group
pdb|2Y4G|B Chain B, Structure Of The Tirandamycin-Bound Fad-Dependent
Tirandamycin Oxidase Taml In P212121 Space Group
Length = 530
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 10 ENAAFSASVESTNTCGYQNGVPQPTRFCVQSGTHVTANTCDYCYED---THPVRYLTDLS 66
EN F E + G + Q V+SG V + +CYED VR + D+S
Sbjct: 51 ENLRFVGDPEEIHLVGSAAEIEQVLSRAVRSGKRVAVRSGGHCYEDFVANSDVRVVMDMS 110
Query: 67 NTTT 70
+
Sbjct: 111 RLSA 114
>pdb|2JGD|A Chain A, E. Coli 2-Oxoglutarate Dehydrogenase (E1o)
Length = 933
Score = 29.3 bits (64), Expect = 2.8, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 163 YSDLSPLTGGAVPFATLEGRY-RAKTFSYNLNLQEFVTATEIRITLDRLNTFYDELFLDP 221
++ +PL + P+ T G+ +A F N + E V A R+ LD NTF ++F+D
Sbjct: 394 FTTSNPLDARSTPYCTDIGKMVQAPIFHVNADDPEAV-AFVTRLALDFRNTFKRDVFIDL 452
Query: 222 SVLRSYFYAIAD 233
R + + AD
Sbjct: 453 VCYRRHGHNEAD 464
>pdb|2JGD|B Chain B, E. Coli 2-Oxoglutarate Dehydrogenase (E1o)
Length = 933
Score = 29.3 bits (64), Expect = 2.8, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 163 YSDLSPLTGGAVPFATLEGRY-RAKTFSYNLNLQEFVTATEIRITLDRLNTFYDELFLDP 221
++ +PL + P+ T G+ +A F N + E V A R+ LD NTF ++F+D
Sbjct: 394 FTTSNPLDARSTPYCTDIGKMVQAPIFHVNADDPEAV-AFVTRLALDFRNTFKRDVFIDL 452
Query: 222 SVLRSYFYAIAD 233
R + + AD
Sbjct: 453 VCYRRHGHNEAD 464
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
0.319 0.133 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,562,674
Number of Sequences: 62578
Number of extensions: 400771
Number of successful extensions: 1034
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1000
Number of HSP's gapped (non-prelim): 17
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)