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= psy8444
(248 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 114 bits (284), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 65/203 (32%), Positives = 101/203 (49%), Gaps = 10/203 (4%)
Query: 4 DCKEGGCKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTC 63
D GC +T +G +PN+P Y EC W ++ G +L F++F LE H C
Sbjct: 228 DGSSTGCGGNLTTSSGTFISPNYPMPYYHSSECYWWLKSSHGSAFELEFKDFHLEHHPNC 287
Query: 64 AYDHVVMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTVC 123
D++ +YDG S +S L + CG + P I + + +++ ++D Q +GF A + C
Sbjct: 288 TLDYLAVYDGPSSNSHLLTQLCGDEKPPLIRSSGDSMFIKLRTDEGQQGRGFKAEYRQTC 347
Query: 124 GGHLQAQDYKRHLYSHARYGHDN-YGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEY 182
+ L S G+ N Y ++ C+WTI A G V+ TFL FD+E + +C
Sbjct: 348 ENVVIVNQTYGILES---IGYPNPYSENQHCNWTIRATTGNTVNYTFLAFDLEHHINCST 404
Query: 183 DYVEVYSGLDSSVSQASYGRFCG 205
DY+E+Y G GR+CG
Sbjct: 405 DYLELYDG------PRQMGRYCG 421
Score = 97.4 bits (241), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 56/183 (30%), Positives = 91/183 (49%), Gaps = 4/183 (2%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVV 69
C +T G I++P HP+ YP C WH P H I L+F+ F LE H C D++
Sbjct: 1 CGEILTESTGTIQSPGHPNVYPHGINCTWHILVQPNHLIHLMFETFHLEFHYNCTNDYLE 60
Query: 70 MYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTVCGGHLQA 129
+YD DS S LGR+CG +P + + N L ++F +D+ + +GF+ + +
Sbjct: 61 VYDTDSETS--LGRYCGKSIPPSLTSSGNSLMLVFVTDSDLAYEGFLINYEAISAATACL 118
Query: 130 QDYKRHLYSH-ARYGHDNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEY-DYVEV 187
QDY L + + +NY + +C + I G+ + + F F +E Y D++E+
Sbjct: 119 QDYTDDLGTFTSPNFPNNYPNNWECIYRITVRTGQLIAVHFTNFSLEEAIGNYYTDFLEI 178
Query: 188 YSG 190
G
Sbjct: 179 RDG 181
Score = 74.7 bits (182), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 57/168 (33%), Positives = 77/168 (45%), Gaps = 16/168 (9%)
Query: 35 ECIWHFTTTPGHRIKLVFQEFELEPHQTCAY-DHVVMYDGDSPDSLTLGRFCGIKLPYPI 93
ECI+ T G I + F F LE Y D + + DG S LG F G LP I
Sbjct: 142 ECIYRITVRTGQLIAVHFTNFSLEEAIGNYYTDFLEIRDGGYEKSPLLGIFYGSNLPPTI 201
Query: 94 ITGSNQLYMMFKSDASVQRKGFIA---THTTVCGGHLQAQDYKRHLYSHARYGHDNYG-- 148
I+ SN+L++ FKSD R GF A +T CGG+L S + NY
Sbjct: 202 ISHSNKLWLKFKSDQIDTRSGFSAYWDGSSTGCGGNLTT--------SSGTFISPNYPMP 253
Query: 149 --KSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSGLDSS 194
S +C W +++ G L F F +E + +C DY+ VY G S+
Sbjct: 254 YYHSSECYWWLKSSHGSAFELEFKDFHLEHHPNCTLDYLAVYDGPSSN 301
Score = 64.7 bits (156), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 55/98 (56%), Gaps = 5/98 (5%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G++++ +P+ Y + C W T G+ + F F+LE H C+ D++ +YDG
Sbjct: 358 GILESIGYPNPYSENQHCNWTIRATTGNTVNYTFLAFDLEHHINCSTDYLELYDGPR--- 414
Query: 79 LTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQR-KGF 115
+GR+CG+ LP P T S++L ++ +D +R KGF
Sbjct: 415 -QMGRYCGVDLPPPGSTTSSKLQVLLLTDGVGRREKGF 451
Score = 50.4 bits (119), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 40/73 (54%), Gaps = 5/73 (6%)
Query: 143 GHDN-YGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSGLDSSVSQASYG 201
GH N Y ++C W I +P +HL F TF +E + +C DY+EVY + S+ S G
Sbjct: 16 GHPNVYPHGINCTWHILVQPNHLIHLMFETFHLEFHYNCTNDYLEVYD----TDSETSLG 71
Query: 202 RFCGTTVALKFQS 214
R+CG ++ S
Sbjct: 72 RYCGKSIPPSLTS 84
>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 = 97.1 bits (240), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 69/233 (29%), Positives = 113/233 (48%), Gaps = 25/233 (10%)
Query: 19 GVIKTPNHPDYYPSKRECIW-HFTTTPGHRIKLVFQ-EFELEPHQTCAYDHVVMYDGDSP 76
G I +P +P YPS + C W + P +I L F FE+E H C YD + + DGDS
Sbjct: 16 GYITSPGYPQDYPSHQNCEWIVYAPEPNQKIVLNFNPHFEIEKHD-CKYDFIEIRDGDSE 74
Query: 77 DSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTVCGGHLQAQDYKRHL 136
+ LG+ CG P II+ + LY+ F SD + Q GF + G ++D ++
Sbjct: 75 SADLLGKHCGNIAPPTIISSGSMLYIKFTSDYARQGAGFSLRYEIFKTG---SEDCSKNF 131
Query: 137 YS-----HARYGHDNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNK------DCEYDYV 185
S + + Y ++DC +TI A+P + L FL FD+E + DC+YD++
Sbjct: 132 TSPNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGDCKYDWL 191
Query: 186 EVYSGLDSSVSQASYGRFCGTTVALKFQSFRDLRIMTSVHMIMLRLEMGMPPD 238
+++ G+ G++CGT ++ +LR T + + +M + D
Sbjct: 192 DIWDGIPH--VGPLIGKYCGT------KTPSELRSSTGILSLTFHTDMAVAKD 236
Score = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 59/119 (49%), Gaps = 6/119 (5%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELE--PHQT----C 63
C T+PNG I++P P+ YP +C + P I L F F+LE P Q C
Sbjct: 127 CSKNFTSPNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGDC 186
Query: 64 AYDHVVMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTV 122
YD + ++DG +G++CG K P + + + L + F +D +V + GF A + V
Sbjct: 187 KYDWLDIWDGIPHVGPLIGKYCGTKTPSELRSSTGILSLTFHTDMAVAKDGFSARYYLV 245
>pdb|2QQM|A Chain A, Crystal Structure Of The A2b1b2 Domains From Human
Neuropilin-1
Length = 450
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 40/119 (33%), Positives = 63/119 (52%), Gaps = 6/119 (5%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQT------C 63
C T P+GVIK+P P+ YP+ EC + I L F+ F+LEP C
Sbjct: 11 CSQNYTTPSGVIKSPGFPEKYPNSLECTYIVFAPKMSEIILEFESFDLEPDSNPPGGMFC 70
Query: 64 AYDHVVMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTV 122
YD + ++DG +GR+CG K P I + S L M+F +D+++ ++GF A ++ +
Sbjct: 71 RYDRLEIWDGFPDVGPHIGRYCGQKTPGRIRSSSGILSMVFYTDSAIAKEGFSANYSVL 129
Score = 34.3 bits (77), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 145 DNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKD------CEYDYVEVYSGLDSSVSQA 198
+ Y S++C + + A + L F +FD+E + + C YD +E++ G
Sbjct: 29 EKYPNSLECTYIVFAPKMSEIILEFESFDLEPDSNPPGGMFCRYDRLEIWDGFPDVGPH- 87
Query: 199 SYGRFCGTTVALKFQS 214
GR+CG + +S
Sbjct: 88 -IGRYCGQKTPGRIRS 102
>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 = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 55/205 (26%), Positives = 90/205 (43%), Gaps = 12/205 (5%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTT-TPGHRIKLVFQ-EFELEPHQTCAYDHVVMYDGDSP 76
G + +P +P Y +C W P RI + F F+LE + C YD+V + DG++
Sbjct: 19 GYLTSPGYPHSYHPSEKCEWLIQAPEPYQRIMINFNPHFDLE-DRDCKYDYVEVIDGENE 77
Query: 77 DSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTVCGGHLQAQDYKRHL 136
G+FCG P P+++ L++ F SD GF + G +Q+Y
Sbjct: 78 GGRLWGKFCGKIAPSPVVSSGPFLFIKFVSDYETHGAGFSIRYEIFKRGPECSQNYTAPT 137
Query: 137 YSHARYGH-DNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKD------CEYDYVEVYS 189
G + Y S++C + I A + L F +FD+E + + C YD +E++
Sbjct: 138 GVIKSPGFPEKYPNSLECTYIIFAPKMSEIILEFESFDLEQDSNPPGGMFCRYDRLEIWD 197
Query: 190 GLDSSVSQASYGRFCGTTVALKFQS 214
G GR+CG + +S
Sbjct: 198 GFPEVGPHI--GRYCGQKTPGRIRS 220
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 40/119 (33%), Positives = 62/119 (52%), Gaps = 6/119 (5%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQT------C 63
C TAP GVIK+P P+ YP+ EC + I L F+ F+LE C
Sbjct: 129 CSQNYTAPTGVIKSPGFPEKYPNSLECTYIIFAPKMSEIILEFESFDLEQDSNPPGGMFC 188
Query: 64 AYDHVVMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTV 122
YD + ++DG +GR+CG K P I + S L M+F +D+++ ++GF A ++ +
Sbjct: 189 RYDRLEIWDGFPEVGPHIGRYCGQKTPGRIRSSSGVLSMVFYTDSAIAKEGFSANYSVL 247
>pdb|2WNO|A Chain A, X-Ray Structure Of Cub_c Domain From Tsg-6
Length = 149
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 40/106 (37%), Positives = 54/106 (50%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVV 69
C T P + K+P P+ Y + C WH G RI L F +F+LE C D+V
Sbjct: 7 CGGVFTDPKQIFKSPGFPNEYEDNQICYWHIRLKYGQRIHLSFLDFDLEDDPGCLADYVE 66
Query: 70 MYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGF 115
+YD +GR+CG +LP II+ N + + F SDASV GF
Sbjct: 67 IYDSYDDVHGFVGRYCGDELPDDIISTGNVMTLKFLSDASVTAGGF 112
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 145 DNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSGLDSSVSQASYGRFC 204
+ Y + C W I + G+ +HL+FL FD+E + C DYVE+Y D GR+C
Sbjct: 25 NEYEDNQICYWHIRLKYGQRIHLSFLDFDLEDDPGCLADYVEIYDSYDD--VHGFVGRYC 82
Query: 205 G 205
G
Sbjct: 83 G 83
>pdb|4AQB|A Chain A, Mbl-Ficolin Associated Protein-1, Map-1 Aka Map44
Length = 361
Score = 68.6 bits (166), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 68/243 (27%), Positives = 98/243 (40%), Gaps = 66/243 (27%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G I++P +PD YPS E W+ T G RIKL F F LE C YD+V + D
Sbjct: 10 GQIQSPGYPDSYPSDSEVTWNITVPDGFRIKLYFMHFNLESSYLCEYDYVKVETEDQ--- 66
Query: 79 LTLGRFCGIKL--------PYPIITGSNQLYMMFKSDASVQRK--GFIATHTTVCGGHLQ 128
L FCG + +++ + + + F+SD S + + GF A + V +
Sbjct: 67 -VLATFCGRETTDTEQTPGQEVVLSPGSFMSITFRSDFSNEERFTGFDAHYMAVDVDECK 125
Query: 129 AQD------------YKRHLYSHARYGH----DN-------------------------- 146
++ Y Y R+G+ DN
Sbjct: 126 EREDEELSCDHYCHNYIGGYYCSCRFGYILHTDNRTCRVECSDNLFTQRTGVITSPDFPN 185
Query: 147 -YGKSMDCDWTIEAEPGKNVHLTFL-TFDIESNKD--CEYDYVEVYSGLDSSVSQASYGR 202
Y KS +C +TIE E G V+L F FDIE + + C YDY+++ V G
Sbjct: 186 PYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKI------KVGPKVLGP 239
Query: 203 FCG 205
FCG
Sbjct: 240 FCG 242
Score = 63.5 bits (153), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 36/105 (34%), Positives = 56/105 (53%), Gaps = 7/105 (6%)
Query: 14 ITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQE-FELE--PHQTCAYDHVVM 70
T GVI +P+ P+ YP EC++ G + L F++ F++E P C YD++ +
Sbjct: 171 FTQRTGVITSPDFPNPYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKI 230
Query: 71 YDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGF 115
G LG FCG K P PI T S+ + ++F SD S + +G+
Sbjct: 231 KVGPK----VLGPFCGEKAPEPISTQSHSVLILFHSDNSGENRGW 271
>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 = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 68/243 (27%), Positives = 98/243 (40%), Gaps = 66/243 (27%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G I++P +PD YPS E W+ T G RIKL F F LE C YD+V + D
Sbjct: 10 GQIQSPGYPDSYPSDSEVTWNITVPDGFRIKLYFMHFNLESSYLCEYDYVKVETEDQ--- 66
Query: 79 LTLGRFCGIKLP--------YPIITGSNQLYMMFKSDASVQRK--GFIATHTTVCGGHLQ 128
L FCG + +++ + + + F+SD S + + GF A + V +
Sbjct: 67 -VLATFCGRETTDTEQTPGQEVVLSPGSFMSITFRSDFSNEERFTGFDAHYMAVDVDECK 125
Query: 129 AQD------------YKRHLYSHARYGH----DN-------------------------- 146
++ Y Y R+G+ DN
Sbjct: 126 EREDEELSCDHYCHNYIGGYYCSCRFGYILHTDNRTCRVECSDNLFTQRTGVITSPDFPN 185
Query: 147 -YGKSMDCDWTIEAEPGKNVHLTFL-TFDIESNKD--CEYDYVEVYSGLDSSVSQASYGR 202
Y KS +C +TIE E G V+L F FDIE + + C YDY+++ V G
Sbjct: 186 PYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKI------KVGPKVLGP 239
Query: 203 FCG 205
FCG
Sbjct: 240 FCG 242
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/105 (34%), Positives = 56/105 (53%), Gaps = 7/105 (6%)
Query: 14 ITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQE-FELE--PHQTCAYDHVVM 70
T GVI +P+ P+ YP EC++ G + L F++ F++E P C YD++ +
Sbjct: 171 FTQRTGVITSPDFPNPYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKI 230
Query: 71 YDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGF 115
G LG FCG K P PI T S+ + ++F SD S + +G+
Sbjct: 231 KVGPK----VLGPFCGEKAPEPISTQSHSVLILFHSDNSGENRGW 271
>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 = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 59/119 (49%), Gaps = 6/119 (5%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELE--PHQT----C 63
C T+PNG I++P P+ YP +C + P I L F F+LE P Q C
Sbjct: 8 CSKNFTSPNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGDC 67
Query: 64 AYDHVVMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTTV 122
YD + ++DG +G++CG K P + + + L + F +D +V + GF A + V
Sbjct: 68 KYDWLDIWDGIPHVGPLIGKYCGTKTPSELRSSTGILSLTFHTDMAVAKDGFSARYYLV 126
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 51/100 (51%), Gaps = 14/100 (14%)
Query: 145 DNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNK------DCEYDYVEVYSGLDSSVSQA 198
+ Y ++DC +TI A+P + L FL FD+E + DC+YD+++++ G+
Sbjct: 26 EKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGDCKYDWLDIWDGIPH--VGP 83
Query: 199 SYGRFCGTTVALKFQSFRDLRIMTSVHMIMLRLEMGMPPD 238
G++CGT ++ +LR T + + +M + D
Sbjct: 84 LIGKYCGT------KTPSELRSSTGILSLTFHTDMAVAKD 117
>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 = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 56/105 (53%), Gaps = 7/105 (6%)
Query: 14 ITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQE-FELE--PHQTCAYDHVVM 70
T G I +P++P+ YP EC + G + L F++ F++E P C YD++ +
Sbjct: 9 FTQRTGTITSPDYPNPYPKSSECSYTIDLEEGFMVTLQFEDIFDIEDHPEVPCPYDYIKI 68
Query: 71 YDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGF 115
G S G FCG K P PI T S+ + ++F+SD S + +G+
Sbjct: 69 KAG----SKVWGPFCGEKSPEPISTQSHSIQILFRSDNSGENRGW 109
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 9/62 (14%)
Query: 147 YGKSMDCDWTIEAEPGKNVHLTFL-TFDIESNKD--CEYDYVEVYSGLDSSVSQASYGRF 203
Y KS +C +TI+ E G V L F FDIE + + C YDY+++ +G +G F
Sbjct: 25 YPKSSECSYTIDLEEGFMVTLQFEDIFDIEDHPEVPCPYDYIKIKAG------SKVWGPF 78
Query: 204 CG 205
CG
Sbjct: 79 CG 80
>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 = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 39/114 (34%), Positives = 58/114 (50%), Gaps = 14/114 (12%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G I +PN+P YPS+ E W G+ I L F ++E + CAYD V + GD+ +
Sbjct: 6 GEILSPNYPQAYPSEVEKSWDIEVPEGYGIHLYFTHLDIELSENCAYDSVQIISGDTEE- 64
Query: 79 LTLGRFCGIKL---PY-PII----TGSNQLYMMFKSDASVQRK--GFIATHTTV 122
GR CG + P+ PI+ N+L ++FKSD S + + GF A +
Sbjct: 65 ---GRLCGQRSSNNPHSPIVEEFQVPYNKLQVIFKSDFSNEERFTGFAAYYVAT 115
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 147 YGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSGLDSSVSQASYGRFCG 205
Y ++ W IE G +HL F DIE +++C YD V++ SG GR CG
Sbjct: 17 YPSEVEKSWDIEVPEGYGIHLYFTHLDIELSENCAYDSVQIISG------DTEEGRLCG 69
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 52/125 (41%), Gaps = 7/125 (5%)
Query: 1 NGHDCKEGGCKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQE---FEL 57
N H C T +G + +P +P YP C ++ G I L F E E+
Sbjct: 157 NKHTCSALCSGQVFTGRSGFLSSPEYPQPYPKLSSCAYNIRLEEGFSITLDFVESFDVEM 216
Query: 58 EPHQTCAYDHVVMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIA 117
P C YD + + D G FCG LP I T SN++ + F +D S G+
Sbjct: 217 HPEAQCPYDSLKI----QTDKREYGPFCGKTLPPRIETDSNKVTITFTTDESGNHTGWKI 272
Query: 118 THTTV 122
+T+
Sbjct: 273 HYTST 277
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 28/46 (60%)
Query: 145 DNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSG 190
+ YG D WT+ A PG + L F F++E + CEYD+V++ SG
Sbjct: 18 EKYGNHQDRSWTLTAPPGFRLRLYFTHFNLELSYRCEYDFVKLTSG 63
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 4/68 (5%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G + +P P+ Y + ++ W T PG R++L F F LE C YD V + G +
Sbjct: 9 GRLVSPGFPEKYGNHQDRSWTLTAPPGFRLRLYFTHFNLELSYRCEYDFVKLTSG----T 64
Query: 79 LTLGRFCG 86
L CG
Sbjct: 65 KVLATLCG 72
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 9/71 (12%)
Query: 147 YGKSMDCDWTIEAEPGKNVHLTFL-TFDIESNKD--CEYDYVEVYSGLDSSVSQASYGRF 203
Y K C + I E G ++ L F+ +FD+E + + C YD +++ + YG F
Sbjct: 186 YPKLSSCAYNIRLEEGFSITLDFVESFDVEMHPEAQCPYDSLKI------QTDKREYGPF 239
Query: 204 CGTTVALKFQS 214
CG T+ + ++
Sbjct: 240 CGKTLPPRIET 250
>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 = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G + +P P Y + +E W T PG+R++L F F+LE C YD V + G +
Sbjct: 13 GRLASPGFPGEYANDQERRWTLTAPPGYRLRLYFTHFDLELSHLCEYDFVKLSSG----A 68
Query: 79 LTLGRFCG 86
L CG
Sbjct: 69 KVLATLCG 76
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 146 NYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSG 190
Y + WT+ A PG + L F FD+E + CEYD+V++ SG
Sbjct: 23 EYANDQERRWTLTAPPGYRLRLYFTHFDLELSHLCEYDFVKLSSG 67
>pdb|1SPP|A Chain A, The Crystal Structures Of Two Members Of The Spermadhesin
Family Reveal The Folding Of The Cub Domain
Length = 109
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 48/100 (48%), Gaps = 14/100 (14%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVV 69
C +T G I T P K EC+W P +++ + L TC ++V
Sbjct: 6 CGGRLTDDYGTIFTYKGP-----KTECVWTLQVDPKYKLLVSIPTLNL----TCGKEYVE 56
Query: 70 MYDGDSPDSLTLGRFC-GIKLPYPIITGSNQLYMMFKSDA 108
+ +G +P S +LG+FC G+ + + GS+ + + +K D+
Sbjct: 57 VLEG-APGSKSLGKFCEGLSI---LNRGSSGMTVKYKRDS 92
>pdb|1SPP|B Chain B, The Crystal Structures Of Two Members Of The Spermadhesin
Family Reveal The Folding Of The Cub Domain
Length = 116
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 7/68 (10%)
Query: 153 CDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSGLDSSVSQASYGRFCGTTVALKF 212
C WTI +P + V + ++ C +YVEV+ GL +S SYG+ C +
Sbjct: 30 CTWTILMKPDQKVRMAIPYLNLA----CGKEYVEVFDGL---LSGPSYGKLCAGAAIVFL 82
Query: 213 QSFRDLRI 220
+ + I
Sbjct: 83 STANTMTI 90
>pdb|1SFP|A Chain A, Crystal Structure Of Acidic Seminal Fluid Protein (Asfp)
At 1.9 A Resolution: A Bovine Polypeptide From The
Spermadhesin Family
Length = 114
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 10/68 (14%)
Query: 18 NGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPD 77
+GVI T YY K C+W P + +++ Q +L C + + + DG P
Sbjct: 18 SGVIAT-----YYGPKTNCVWTIQMPPEYHVRVSIQYLQL----NCNKESLEIIDG-LPG 67
Query: 78 SLTLGRFC 85
S LG+ C
Sbjct: 68 SPVLGKIC 75
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 16/86 (18%)
Query: 119 HTTVCGGHLQAQDYKRHLYSHARYGHDNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNK 178
T CGG L+ + Y YG +C WTI+ P +V ++ + NK
Sbjct: 6 RNTNCGGILKEESGVIATY---------YGPKTNCVWTIQMPPEYHVRVSIQYLQLNCNK 56
Query: 179 DCEYDYVEVYSGLDSSVSQASYGRFC 204
+ +E+ GL S G+ C
Sbjct: 57 ES----LEIIDGLPGS---PVLGKIC 75
>pdb|2II0|A Chain A, Crystal Structure Of Catalytic Domain Of Son Of Sevenless
(Rem-Cdc25) In The Absence Of Ras
Length = 490
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 78 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 118
>pdb|1BKD|S Chain S, Complex Of Human H-Ras With Human Sos-1
Length = 477
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 70 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 110
>pdb|1XD2|C Chain C, Crystal Structure Of A Ternary Ras:sos:ras*gdp Complex
Length = 484
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 72 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 112
>pdb|1NVU|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
pdb|1NVV|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-specific Nucleotide Exchange Factor Sos
pdb|1NVW|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-specific Nucleotide Exchange Factor Sos
pdb|1NVX|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
Length = 481
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 72 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 112
>pdb|3KSY|A Chain A, Crystal Structure Of The Histone Domain, Dh-Ph Unit, And
Catalytic Unit Of The Ras Activator Son Of Sevenless
(Sos)
Length = 1049
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 637 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 677
>pdb|1XD4|A Chain A, Crystal Structure Of The Dh-Ph-Cat Module Of Son Of
Sevenless (Sos)
pdb|1XD4|B Chain B, Crystal Structure Of The Dh-Ph-Cat Module Of Son Of
Sevenless (Sos)
Length = 852
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 440 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 480
>pdb|1XDV|A Chain A, Experimentally Phased Structure Of Human The Son Of
Sevenless Protein At 4.1 Ang.
pdb|1XDV|B Chain B, Experimentally Phased Structure Of Human The Son Of
Sevenless Protein At 4.1 Ang
Length = 847
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 44 PGHRIKLVFQEFEL-EPHQTCAYDHVVMYDGDSPDSLTLGRF 84
P + L+ + FE+ EP T A D + + +GD P S L RF
Sbjct: 440 PQELLSLIIERFEIPEPEPTEA-DRIAIENGDQPLSAELKRF 480
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
0.322 0.139 0.444
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,407,609
Number of Sequences: 62578
Number of extensions: 349758
Number of successful extensions: 707
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 647
Number of HSP's gapped (non-prelim): 42
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
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: 50 (23.9 bits)