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= psy16691
(94 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QQK|A Chain A, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
pdb|2QQL|A Chain A, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
Length = 579
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 42/91 (46%), Gaps = 8/91 (8%)
Query: 10 NANTSLTGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLE------PQSE 63
+ + + T G I SP FP Y +NLD TI + I+L FL DLE + +
Sbjct: 126 DCSKNFTSPNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGD 185
Query: 64 CLYDYVEMYHAASVTPP--TRLCGNHHISAL 92
C YD+++++ P + CG S L
Sbjct: 186 CKYDWLDIWDGIPHVGPLIGKYCGTKTPSEL 216
Score = 34.7 bits (78), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 15/76 (19%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPE-ETRIVLAF-LRLDLEPQSECLYDYVEMY----- 72
G+ITSP +P +Y ++ + + PE +IVL F ++E + +C YD++E+
Sbjct: 16 GYITSPGYPQDYPSHQNCEWIVYAPEPNQKIVLNFNPHFEIE-KHDCKYDFIEIRDGDSE 74
Query: 73 -------HAASVTPPT 81
H ++ PPT
Sbjct: 75 SADLLGKHCGNIAPPT 90
>pdb|2QQO|A Chain A, Crystal Structure Of The A2b1b2 Domains From Human
Neuropilin-2
pdb|2QQO|B Chain B, Crystal Structure Of The A2b1b2 Domains From Human
Neuropilin-2
Length = 460
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 42/91 (46%), Gaps = 8/91 (8%)
Query: 10 NANTSLTGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLE------PQSE 63
+ + + T G I SP FP Y +NLD TI + I+L FL DLE + +
Sbjct: 7 DCSKNFTSPNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGD 66
Query: 64 CLYDYVEMYHAASVTPP--TRLCGNHHISAL 92
C YD+++++ P + CG S L
Sbjct: 67 CKYDWLDIWDGIPHVGPLIGKYCGTKTPSEL 97
>pdb|2QQM|A Chain A, Crystal Structure Of The A2b1b2 Domains From Human
Neuropilin-1
Length = 450
Score = 46.2 bits (108), Expect = 4e-06, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 16 TGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSE------CLYDYV 69
T G I SP FP Y N+L+ + P+ + I+L F DLEP S C YD +
Sbjct: 16 TTPSGVIKSPGFPEKYPNSLECTYIVFAPKMSEIILEFESFDLEPDSNPPGGMFCRYDRL 75
Query: 70 EMYHAASVTPP--TRLCG 85
E++ P R CG
Sbjct: 76 EIWDGFPDVGPHIGRYCG 93
>pdb|2WNO|A Chain A, X-Ray Structure Of Cub_c Domain From Tsg-6
Length = 149
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 15 LTGTEGFITSPAFPSNYANN-LDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEMYH 73
T + SP FP+ Y +N + YW IR RI L+FL DLE CL DYVE+Y
Sbjct: 11 FTDPKQIFKSPGFPNEYEDNQICYW-HIRLKYGQRIHLSFLDFDLEDDPGCLADYVEIYD 69
Query: 74 AASVTPP--TRLCGN 86
+ R CG+
Sbjct: 70 SYDDVHGFVGRYCGD 84
>pdb|1SZB|A Chain A, Crystal Structure Of The Human Mbl-Associated Protein 19
(Map19)
pdb|1SZB|B Chain B, Crystal Structure Of The Human Mbl-Associated Protein 19
(Map19)
Length = 170
Score = 45.8 bits (107), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEMYHAASVTP 79
G + SP FP YAN+ + T+ P R+ L F DLE C YD+V++ A V
Sbjct: 13 GRLASPGFPGEYANDQERRWTLTAPPGYRLRLYFTHFDLELSHLCEYDFVKLSSGAKVL- 71
Query: 80 PTRLCGN 86
LCG
Sbjct: 72 -ATLCGQ 77
>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 = 44.3 bits (103), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 35/78 (44%), Gaps = 8/78 (10%)
Query: 16 TGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSE------CLYDYV 69
T G I SP FP Y N+L+ I P+ + I+L F DLE S C YD +
Sbjct: 134 TAPTGVIKSPGFPEKYPNSLECTYIIFAPKMSEIILEFESFDLEQDSNPPGGMFCRYDRL 193
Query: 70 EMYHAASVTPP--TRLCG 85
E++ P R CG
Sbjct: 194 EIWDGFPEVGPHIGRYCG 211
Score = 33.9 bits (76), Expect = 0.025, Method: Composition-based stats.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPEE-TRIVLAF-LRLDLEPQSECLYDYVEM 71
G++TSP +P +Y + I+ PE RI++ F DLE + +C YDYVE+
Sbjct: 19 GYLTSPGYPHSYHPSEKCEWLIQAPEPYQRIMINFNPHFDLEDR-DCKYDYVEV 71
>pdb|1NT0|A Chain A, Crystal Structure Of The Cub1-Egf-Cub2 Region Of Masp2
pdb|1NT0|G Chain G, Crystal Structure Of The Cub1-Egf-Cub2 Region Of Masp2
Length = 286
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEMYHAASVTP 79
G + SP FP Y N+ D T+ P R+ L F +LE C YD+V++ V
Sbjct: 9 GRLVSPGFPEKYGNHQDRSWTLTAPPGFRLRLYFTHFNLELSYRCEYDFVKLTSGTKVL- 67
Query: 80 PTRLCGN 86
LCG
Sbjct: 68 -ATLCGQ 73
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 15 LTGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLR---LDLEPQSECLYDYVEM 71
TG GF++SP +P Y IR E I L F+ +++ P+++C YD +++
Sbjct: 170 FTGRSGFLSSPEYPQPYPKLSSCAYNIRLEEGFSITLDFVESFDVEMHPEAQCPYDSLKI 229
>pdb|1NZI|A Chain A, Crystal Structure Of The Cub1-Egf Interaction Domain Of
Complement Protease C1s
pdb|1NZI|B Chain B, Crystal Structure Of The Cub1-Egf Interaction Domain Of
Complement Protease C1s
Length = 159
Score = 38.5 bits (88), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEMYHAASVTP 79
G I SP +P Y + ++ I PE I L F LD+E C YD V++ + T
Sbjct: 6 GEILSPNYPQAYPSEVEKSWDIEVPEGYGIHLYFTHLDIELSENCAYDSVQI--ISGDTE 63
Query: 80 PTRLCG 85
RLCG
Sbjct: 64 EGRLCG 69
>pdb|4AQB|A Chain A, Mbl-Ficolin Associated Protein-1, Map-1 Aka Map44
Length = 361
Score = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 29/52 (55%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEM 71
G I SP +P +Y ++ + I P+ RI L F+ +LE C YDYV++
Sbjct: 10 GQIQSPGYPDSYPSDSEVTWNITVPDGFRIKLYFMHFNLESSYLCEYDYVKV 61
Score = 33.5 bits (75), Expect = 0.032, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 5/74 (6%)
Query: 15 LTGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRL-DLE--PQSECLYDYVEM 71
T G ITSP FP+ Y + + TI E + L F + D+E P+ C YDY+++
Sbjct: 171 FTQRTGVITSPDFPNPYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKI 230
Query: 72 YHAASVTPPTRLCG 85
V P CG
Sbjct: 231 KVGPKVLGP--FCG 242
>pdb|3DEM|A Chain A, Cub1-egf-cub2 Domain Of Human Masp-1/3
pdb|3DEM|B Chain B, Cub1-egf-cub2 Domain Of Human Masp-1/3
Length = 278
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 29/52 (55%)
Query: 20 GFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEM 71
G I SP +P +Y ++ + I P+ RI L F+ +LE C YDYV++
Sbjct: 10 GQIQSPGYPDSYPSDSEVTWNITVPDGFRIKLYFMHFNLESSYLCEYDYVKV 61
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 5/74 (6%)
Query: 15 LTGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRL-DLE--PQSECLYDYVEM 71
T G ITSP FP+ Y + + TI E + L F + D+E P+ C YDY+++
Sbjct: 171 FTQRTGVITSPDFPNPYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKI 230
Query: 72 YHAASVTPPTRLCG 85
V P CG
Sbjct: 231 KVGPKVLGP--FCG 242
>pdb|3KQ4|B Chain B, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|D Chain D, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|F Chain F, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
Length = 457
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 18 TEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEMYHAASV 77
T G + S +P+ Y+ N TIR + FL DLE C DY+E+Y
Sbjct: 356 TYGILESIGYPNPYSENQHCNWTIRATTGNTVNYTFLAFDLEHHINCSTDYLELYDGPRQ 415
Query: 78 TPPTRLCG 85
R CG
Sbjct: 416 M--GRYCG 421
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 15 LTGTEGFITSPAFPSNYANNLD-YWVTIRGPEETRIVLAFLRLDLEPQSECLYDYVEMYH 73
LT + G I SP P+ Y + ++ W + P I L F LE C DY+E+Y
Sbjct: 5 LTESTGTIQSPGHPNVYPHGINCTWHILVQPNHL-IHLMFETFHLEFHYNCTNDYLEVYD 63
Query: 74 AASVTPPTRLCG 85
S T R CG
Sbjct: 64 TDSETSLGRYCG 75
>pdb|3POB|A Chain A, Crystal Structure Of Masp-1 Cub2 Domain In Complex With
The Collagen- Like Domain Of Mbl
pdb|3POE|A Chain A, Crystal Structure Of The Masp-1 Cub2 Domain Bound To
Ca2+
pdb|3POF|A Chain A, Crystal Structure Of Masp-1 Cub2 Domain Bound To Ca2+
pdb|3POF|B Chain B, Crystal Structure Of Masp-1 Cub2 Domain Bound To Ca2+
pdb|3POG|A Chain A, Crystal Structure Of The Masp-1 Cub2 Domain Bound To
Ca2+
pdb|3POG|B Chain B, Crystal Structure Of The Masp-1 Cub2 Domain Bound To
Ca2+
pdb|3POG|C Chain C, Crystal Structure Of The Masp-1 Cub2 Domain Bound To
Ca2+
pdb|3POI|A Chain A, Crystal Structure Of Masp-1 Cub2 Domain Bound To
Methylamine
pdb|3POI|B Chain B, Crystal Structure Of Masp-1 Cub2 Domain Bound To
Methylamine
pdb|3POJ|A Chain A, Crystal Structure Of Masp-1 Cub2 Domain Bound To
Ethylamine
pdb|3POJ|B Chain B, Crystal Structure Of Masp-1 Cub2 Domain Bound To
Ethylamine
Length = 115
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 10 NANTSLTGTEGFITSPAFPSNYANNLDYWVTIRGPEETRIVLAFLRL-DLE--PQSECLY 66
N T TGT ITSP +P+ Y + + TI E + L F + D+E P+ C Y
Sbjct: 7 NLFTQRTGT---ITSPDYPNPYPKSSECSYTIDLEEGFMVTLQFEDIFDIEDHPEVPCPY 63
Query: 67 DYVEMYHAASVTPPTRLCG 85
DY+++ + V P CG
Sbjct: 64 DYIKIKAGSKVWGP--FCG 80
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 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,055,850
Number of Sequences: 62578
Number of extensions: 102070
Number of successful extensions: 254
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 235
Number of HSP's gapped (non-prelim): 19
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
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: 45 (21.9 bits)