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= psy17777
(1375 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M3D|C Chain C, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|F Chain F, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|I Chain I, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|L Chain L, Structure Of Type Iv Collagen Nc1 Domains
pdb|1T60|C Chain C, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|F Chain F, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|I Chain I, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|L Chain L, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|O Chain O, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|R Chain R, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|U Chain U, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|X Chain X, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T61|C Chain C, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|F Chain F, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
Length = 227
Score = 328 bits (840), Expect = 1e-89, Method: Composition-based stats.
Identities = 151/227 (66%), Positives = 171/227 (75%), Gaps = 5/227 (2%)
Query: 1147 GILMVKHSQTAEVPSCTDDKTNTQFTKLWEGYSLLYVEGNEQAHNQDLGFAGSCVRKFST 1206
G L+VKHSQT + P C KLW GYSLLY EG E+AHNQDLG AGSC+ +FST
Sbjct: 4 GYLLVKHSQTDQEPMCP-----VGMNKLWSGYSLLYFEGQEKAHNQDLGLAGSCLARFST 58
Query: 1207 MPFLFCDPNNVCNYASRNDRSYWLSTEEPMPMMPVESTQIQKFISRCVVCEVPANVIAVH 1266
MPFL+C+P +VC YASRND+SYWLST P+PMMPV I+ +ISRC VCE PA IAVH
Sbjct: 59 MPFLYCNPGDVCYYASRNDKSYWLSTTAPLPMMPVAEEDIRPYISRCSVCEAPAVAIAVH 118
Query: 1267 SQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEHG 1326
SQ V IP CP GW SLWIGYSF+MHTAAG +GGGQSL SPGSCLE+FRATPFIECNG G
Sbjct: 119 SQDVSIPHCPAGWRSLWIGYSFLMHTAAGDEGGGQSLVSPGSCLEDFRATPFIECNGARG 178
Query: 1327 SCHYFANKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRCQVCIK 1373
+CHY+ANK SFWL TI Q P TLK+G +R ISRCQVC+K
Sbjct: 179 TCHYYANKYSFWLTTIPEQSFQGTPSADTLKAGLIRTHISRCQVCMK 225
Score = 224 bits (571), Expect = 3e-58, Method: Composition-based stats.
Identities = 101/148 (68%), Positives = 113/148 (76%)
Query: 871 RNDRSYWLSTEEPMPMMPVESTQIQKFISRCVVCEVPANVIAVHSQSVVIPECPVGWNSL 930
RND+SYWLST P+PMMPV I+ +ISRC VCE PA IAVHSQ V IP CP GW SL
Sbjct: 75 RNDKSYWLSTTAPLPMMPVAEEDIRPYISRCSVCEAPAVAIAVHSQDVSIPHCPAGWRSL 134
Query: 931 WIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEHGSCHYFANKLSFWLATI 990
WIGYSF+MHTAAG +GGGQSL SPGSCLE+FRATPFIECNG G+CHY+ANK SFWL TI
Sbjct: 135 WIGYSFLMHTAAGDEGGGQSLVSPGSCLEDFRATPFIECNGARGTCHYYANKYSFWLTTI 194
Query: 991 DPQDQWSRPQQQTLKSGNLRQRISRCQL 1018
Q P TLK+G +R ISRCQ+
Sbjct: 195 PEQSFQGTPSADTLKAGLIRTHISRCQV 222
Score = 61.2 bits (147), Expect = 4e-09, Method: Composition-based stats.
Identities = 39/107 (36%), Positives = 52/107 (48%), Gaps = 11/107 (10%)
Query: 914 HSQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEH 973
HSQ+ P CPVG N LW GYS +++ Q L GSCL F PF+ CN
Sbjct: 10 HSQTDQEPMCPVGMNKLWSGYS-LLYFEGQEKAHNQDLGLAGSCLARFSTMPFLYCNP-- 66
Query: 974 GSCHYFA--NKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRCQL 1018
G Y+A N S+WL+T P ++ ++R ISRC +
Sbjct: 67 GDVCYYASRNDKSYWLSTTAPLPMMPVAEE------DIRPYISRCSV 107
>pdb|1LI1|C Chain C, The 1.9-A Crystal Structure Of The Noncollagenous (Nc1)
Domain Of Human Placenta Collagen Iv Shows Stabilization
Via A Novel Type Of Covalent Met-Lys Cross-Link
pdb|1LI1|F Chain F, The 1.9-A Crystal Structure Of The Noncollagenous (Nc1)
Domain Of Human Placenta Collagen Iv Shows Stabilization
Via A Novel Type Of Covalent Met-Lys Cross-Link
Length = 228
Score = 326 bits (836), Expect = 5e-89, Method: Composition-based stats.
Identities = 151/227 (66%), Positives = 172/227 (75%), Gaps = 5/227 (2%)
Query: 1147 GILMVKHSQTAEVPSCTDDKTNTQFTKLWEGYSLLYVEGNEQAHNQDLGFAGSCVRKFST 1206
G L+VKHSQT + P C KLW GYSLLY EG E+AHNQDLG AGSC+ +FST
Sbjct: 5 GYLLVKHSQTDQEPMCP-----VGMNKLWSGYSLLYFEGQEKAHNQDLGLAGSCLARFST 59
Query: 1207 MPFLFCDPNNVCNYASRNDRSYWLSTEEPMPMMPVESTQIQKFISRCVVCEVPANVIAVH 1266
MPFL+C+P +VC YASRND+SYWLST P+PMMPV +I+ +ISRC VCE PA IAVH
Sbjct: 60 MPFLYCNPGDVCYYASRNDKSYWLSTTAPLPMMPVAEDEIKPYISRCSVCEAPAIAIAVH 119
Query: 1267 SQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEHG 1326
SQ V IP CP GW SLWIGYSF+MHTAAG +GGGQSL SPGSCLE+FRATPFIECNG G
Sbjct: 120 SQDVSIPHCPAGWRSLWIGYSFLMHTAAGDEGGGQSLVSPGSCLEDFRATPFIECNGGRG 179
Query: 1327 SCHYFANKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRCQVCIK 1373
+CHY+ANK SFWL TI Q P TLK+G +R ISRCQVC+K
Sbjct: 180 TCHYYANKYSFWLTTIPEQSFQGSPSADTLKAGLIRTHISRCQVCMK 226
Score = 223 bits (568), Expect = 6e-58, Method: Composition-based stats.
Identities = 101/148 (68%), Positives = 114/148 (77%)
Query: 871 RNDRSYWLSTEEPMPMMPVESTQIQKFISRCVVCEVPANVIAVHSQSVVIPECPVGWNSL 930
RND+SYWLST P+PMMPV +I+ +ISRC VCE PA IAVHSQ V IP CP GW SL
Sbjct: 76 RNDKSYWLSTTAPLPMMPVAEDEIKPYISRCSVCEAPAIAIAVHSQDVSIPHCPAGWRSL 135
Query: 931 WIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEHGSCHYFANKLSFWLATI 990
WIGYSF+MHTAAG +GGGQSL SPGSCLE+FRATPFIECNG G+CHY+ANK SFWL TI
Sbjct: 136 WIGYSFLMHTAAGDEGGGQSLVSPGSCLEDFRATPFIECNGGRGTCHYYANKYSFWLTTI 195
Query: 991 DPQDQWSRPQQQTLKSGNLRQRISRCQL 1018
Q P TLK+G +R ISRCQ+
Sbjct: 196 PEQSFQGSPSADTLKAGLIRTHISRCQV 223
Score = 58.9 bits (141), Expect = 2e-08, Method: Composition-based stats.
Identities = 38/107 (35%), Positives = 51/107 (47%), Gaps = 11/107 (10%)
Query: 914 HSQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEH 973
HSQ+ P CPVG N LW GYS +++ Q L GSCL F PF+ CN
Sbjct: 11 HSQTDQEPMCPVGMNKLWSGYS-LLYFEGQEKAHNQDLGLAGSCLARFSTMPFLYCNP-- 67
Query: 974 GSCHYFA--NKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRCQL 1018
G Y+A N S+WL+T P + + ++ ISRC +
Sbjct: 68 GDVCYYASRNDKSYWLSTTAPLPMMPVAEDE------IKPYISRCSV 108
>pdb|1M3D|A Chain A, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|B Chain B, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|D Chain D, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|E Chain E, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|G Chain G, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|H Chain H, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|J Chain J, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|K Chain K, Structure Of Type Iv Collagen Nc1 Domains
pdb|1T60|A Chain A, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|B Chain B, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|D Chain D, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|E Chain E, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|G Chain G, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|H Chain H, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|J Chain J, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|K Chain K, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|M Chain M, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|N Chain N, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|P Chain P, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|Q Chain Q, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|S Chain S, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|T Chain T, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|V Chain V, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T60|W Chain W, Crystal Structure Of Type Iv Collagen Nc1 Domain From Bovine
Lens Capsule
pdb|1T61|A Chain A, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|B Chain B, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|D Chain D, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|E Chain E, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
Length = 229
Score = 316 bits (810), Expect = 5e-86, Method: Composition-based stats.
Identities = 148/231 (64%), Positives = 180/231 (77%), Gaps = 10/231 (4%)
Query: 1147 GILMVKHSQTAEVPSCTDDKTNTQFTK-LWEGYSLLYVEGNEQAHNQDLGFAGSCVRKFS 1205
G L+ +HSQT + P C TK L+ GYSLLYV+GNE+AH QDLG AGSC+RKFS
Sbjct: 5 GFLVTRHSQTTDDPQCPPG------TKILYHGYSLLYVQGNERAHGQDLGTAGSCLRKFS 58
Query: 1206 TMPFLFCDPNNVCNYASRNDRSYWLSTEEPMPM--MPVESTQIQKFISRCVVCEVPANVI 1263
TMPFLFC+ NNVCN+ASRND SYWLST EPMPM P+ I+ FISRC VCE PA V+
Sbjct: 59 TMPFLFCNINNVCNFASRNDYSYWLSTPEPMPMSMAPITGENIRPFISRCAVCEAPAMVM 118
Query: 1264 AVHSQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNG 1323
AVHSQ++ IP+CP GW+SLWIGYSFVMHT+AG +G GQ+LASPGSCLEEFR+ PFIEC+G
Sbjct: 119 AVHSQTIQIPQCPTGWSSLWIGYSFVMHTSAGAEGSGQALASPGSCLEEFRSAPFIECHG 178
Query: 1324 EHGSCHYFANKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRCQVCIKR 1374
G+C+Y+AN SFWLATI+ + + +P TLK+G LR +SRCQVC++R
Sbjct: 179 R-GTCNYYANAYSFWLATIERSEMFKKPTPSTLKAGELRTHVSRCQVCMRR 228
Score = 214 bits (544), Expect = 3e-55, Method: Composition-based stats.
Identities = 96/150 (64%), Positives = 118/150 (78%), Gaps = 3/150 (2%)
Query: 871 RNDRSYWLSTEEPMPM--MPVESTQIQKFISRCVVCEVPANVIAVHSQSVVIPECPVGWN 928
RND SYWLST EPMPM P+ I+ FISRC VCE PA V+AVHSQ++ IP+CP GW+
Sbjct: 76 RNDYSYWLSTPEPMPMSMAPITGENIRPFISRCAVCEAPAMVMAVHSQTIQIPQCPTGWS 135
Query: 929 SLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEHGSCHYFANKLSFWLA 988
SLWIGYSFVMHT+AG +G GQ+LASPGSCLEEFR+ PFIEC+G G+C+Y+AN SFWLA
Sbjct: 136 SLWIGYSFVMHTSAGAEGSGQALASPGSCLEEFRSAPFIECHGR-GTCNYYANAYSFWLA 194
Query: 989 TIDPQDQWSRPQQQTLKSGNLRQRISRCQL 1018
TI+ + + +P TLK+G LR +SRCQ+
Sbjct: 195 TIERSEMFKKPTPSTLKAGELRTHVSRCQV 224
Score = 62.0 bits (149), Expect = 2e-09, Method: Composition-based stats.
Identities = 37/108 (34%), Positives = 57/108 (52%), Gaps = 7/108 (6%)
Query: 910 VIAVHSQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIEC 969
++ HSQ+ P+CP G L+ GYS +++ GQ L + GSCL +F PF+ C
Sbjct: 7 LVTRHSQTTDDPQCPPGTKILYHGYS-LLYVQGNERAHGQDLGTAGSCLRKFSTMPFLFC 65
Query: 970 NGEHGSCHYFA-NKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRC 1016
N + C++ + N S+WL+T +P P + N+R ISRC
Sbjct: 66 N-INNVCNFASRNDYSYWLSTPEPMPMSMAP----ITGENIRPFISRC 108
>pdb|1LI1|A Chain A, The 1.9-A Crystal Structure Of The Noncollagenous (Nc1)
Domain Of Human Placenta Collagen Iv Shows Stabilization
Via A Novel Type Of Covalent Met-Lys Cross-Link
pdb|1LI1|B Chain B, The 1.9-A Crystal Structure Of The Noncollagenous (Nc1)
Domain Of Human Placenta Collagen Iv Shows Stabilization
Via A Novel Type Of Covalent Met-Lys Cross-Link
pdb|1LI1|D Chain D, The 1.9-A Crystal Structure Of The Noncollagenous (Nc1)
Domain Of Human Placenta Collagen Iv Shows Stabilization
Via A Novel Type Of Covalent Met-Lys Cross-Link
pdb|1LI1|E Chain E, The 1.9-A Crystal Structure Of The Noncollagenous (Nc1)
Domain Of Human Placenta Collagen Iv Shows Stabilization
Via A Novel Type Of Covalent Met-Lys Cross-Link
Length = 229
Score = 315 bits (808), Expect = 1e-85, Method: Composition-based stats.
Identities = 147/230 (63%), Positives = 180/230 (78%), Gaps = 8/230 (3%)
Query: 1147 GILMVKHSQTAEVPSCTDDKTNTQFTKLWEGYSLLYVEGNEQAHNQDLGFAGSCVRKFST 1206
G L+ +HSQT + P C + T+ L+ GYSLLYV+GNE+AH QDLG AGSC+RKFST
Sbjct: 5 GFLVTRHSQTIDDPQC---PSGTKI--LYHGYSLLYVQGNERAHGQDLGTAGSCLRKFST 59
Query: 1207 MPFLFCDPNNVCNYASRNDRSYWLSTEEPMPM--MPVESTQIQKFISRCVVCEVPANVIA 1264
MPFLFC+ NNVCN+ASRND SYWLST EPMPM P+ I+ FISRC VCE PA V+A
Sbjct: 60 MPFLFCNINNVCNFASRNDYSYWLSTPEPMPMSMAPITGENIRPFISRCAVCEAPAMVMA 119
Query: 1265 VHSQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGE 1324
VHSQ++ IP CP GW+SLWIGYSFVMHT+AG +G GQ+LASPGSCLEEFR+ PFIEC+G
Sbjct: 120 VHSQTIQIPPCPSGWSSLWIGYSFVMHTSAGAEGSGQALASPGSCLEEFRSAPFIECHGR 179
Query: 1325 HGSCHYFANKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRCQVCIKR 1374
G+C+Y+AN SFWLATI+ + + +P TLK+G LR +SRCQVC++R
Sbjct: 180 -GTCNYYANAYSFWLATIERSEMFKKPTPSTLKAGELRTHVSRCQVCMRR 228
Score = 212 bits (540), Expect = 1e-54, Method: Composition-based stats.
Identities = 96/150 (64%), Positives = 117/150 (78%), Gaps = 3/150 (2%)
Query: 871 RNDRSYWLSTEEPMPM--MPVESTQIQKFISRCVVCEVPANVIAVHSQSVVIPECPVGWN 928
RND SYWLST EPMPM P+ I+ FISRC VCE PA V+AVHSQ++ IP CP GW+
Sbjct: 76 RNDYSYWLSTPEPMPMSMAPITGENIRPFISRCAVCEAPAMVMAVHSQTIQIPPCPSGWS 135
Query: 929 SLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIECNGEHGSCHYFANKLSFWLA 988
SLWIGYSFVMHT+AG +G GQ+LASPGSCLEEFR+ PFIEC+G G+C+Y+AN SFWLA
Sbjct: 136 SLWIGYSFVMHTSAGAEGSGQALASPGSCLEEFRSAPFIECHGR-GTCNYYANAYSFWLA 194
Query: 989 TIDPQDQWSRPQQQTLKSGNLRQRISRCQL 1018
TI+ + + +P TLK+G LR +SRCQ+
Sbjct: 195 TIERSEMFKKPTPSTLKAGELRTHVSRCQV 224
Score = 63.2 bits (152), Expect = 9e-10, Method: Composition-based stats.
Identities = 37/108 (34%), Positives = 58/108 (53%), Gaps = 7/108 (6%)
Query: 910 VIAVHSQSVVIPECPVGWNSLWIGYSFVMHTAAGGDGGGQSLASPGSCLEEFRATPFIEC 969
++ HSQ++ P+CP G L+ GYS +++ GQ L + GSCL +F PF+ C
Sbjct: 7 LVTRHSQTIDDPQCPSGTKILYHGYS-LLYVQGNERAHGQDLGTAGSCLRKFSTMPFLFC 65
Query: 970 NGEHGSCHYFA-NKLSFWLATIDPQDQWSRPQQQTLKSGNLRQRISRC 1016
N + C++ + N S+WL+T +P P + N+R ISRC
Sbjct: 66 N-INNVCNFASRNDYSYWLSTPEPMPMSMAP----ITGENIRPFISRC 108
>pdb|3HQV|B Chain B, Low Resolution, Molecular Envelope Structure Of Type I
Collagen In Situ Determined By Fiber Diffraction. Single
Type I Collagen Molecule, Rigid Body Refinement
pdb|3HR2|B Chain B, Low Resolution, Molecular Envelope Structure Of Type I
Collagen In Situ Determined By Fiber Diffraction. Single
Type I Collagen Molecule, Post Rigid Body Refinement,
'relaxed'
Length = 1028
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 49/122 (40%), Positives = 59/122 (48%), Gaps = 12/122 (9%)
Query: 423 KGERGPPGLKGDIGRDGPMGPPGPKGVIGLTGDRGFNGESGEK-----VWKHILSSRHGD 477
KGERG G+IG G G PGP G +G G G GE G V G
Sbjct: 866 KGERG---YXGNIGPTGAAGAPGPHGSVGPAGKHGNRGEPGPAGSVGPVGAVGPRGPSGP 922
Query: 478 KGWPGIDGTPGQDGIPGLKGEKGH-GIKGEPGINGTHGVKGEKGQPGGIGYKGEPGERGS 536
+G G G PG G GL G KGH G++G PG+ G H G++G PG +G G G G
Sbjct: 923 QGIRGDKGEPGDXGARGLPGLKGHNGLQGLPGLAGLH---GDQGAPGPVGPAGPRGPAGP 979
Query: 537 TG 538
+G
Sbjct: 980 SG 981
Score = 38.9 bits (89), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 46/118 (38%), Positives = 56/118 (47%), Gaps = 15/118 (12%)
Query: 424 GERGPPGLKGDIGRDGPMGPPGPKGVIGLTGDRGFNGESGEKVWKHILSSRHGDKGWPGI 483
G RG PG G +G G +GP GP G G+ GD+G G+ G +G PG+
Sbjct: 897 GNRGEPGPAGSVGPVGAVGPRGPSGPQGIRGDKGEPGDXGA-------------RGLPGL 943
Query: 484 DGTPGQDGIPGLKGEKGHGIKGEPGINGTHGVKGEKGQPGGIGYKGEPGERGSTGSKG 541
G G G+PGL G HG +G PG G G +G G G IG G G G G G
Sbjct: 944 KGHNGLQGLPGLAGL--HGDQGAPGPVGPAGPRGPAGPSGPIGKDGRSGHPGPVGPAG 999
Score = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 48/152 (31%), Positives = 67/152 (44%), Gaps = 33/152 (21%)
Query: 423 KGERGPPGLKGDIGRDGPMG------------PPGPKGVIGLTGDRGFNGESGEK--VWK 468
+GERG G+ G +G GP+G G GV G G+ G +G G +
Sbjct: 800 RGERGQXGIAGALGEXGPLGIAGPXGARGPXGAVGSXGVNGAXGEAGRDGNXGSDGPXGR 859
Query: 469 HILSSRHGDKGWPGIDGTPGQDGIPGLKGEKG----HGIKGEPGINGT------------ 512
G++G+ G G G G PG G G HG +GEPG G+
Sbjct: 860 DGQXGHKGERGYXGNIGPTGAAGAPGPHGSVGPAGKHGNRGEPGPAGSVGPVGAVGPRGP 919
Query: 513 ---HGVKGEKGQPGGIGYKGEPGERGSTGSKG 541
G++G+KG+PG G +G PG +G G +G
Sbjct: 920 SGPQGIRGDKGEPGDXGARGLPGLKGHNGLQG 951
Score = 32.7 bits (73), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 49/134 (36%), Positives = 57/134 (42%), Gaps = 15/134 (11%)
Query: 424 GERGPPGLKGDIGRDGPMGPPGPKGVIGLTGDRGFNGES----GEKVWKHILSSRHGDKG 479
G+ GP GL G GR GP+GP GP+G G G G G S H +
Sbjct: 384 GKEGPVGLXGIDGRXGPIGPAGPRGEAGNIGFXGPKGPSGDXGKXGEKGHPGLAGARGAX 443
Query: 480 WP----GIDGTPGQDGIPGLKGEKG-------HGIKGEPGINGTHGVKGEKGQPGGIGYK 528
P G G G G+ G KGE+G G+ G G G G GE+G PG G
Sbjct: 444 GPDGNNGAQGPXGPQGVQGGKGEQGPAGPXGFQGLXGPSGTAGEVGKXGERGLPGEFGLX 503
Query: 529 GEPGERGSTGSKGE 542
G G RG G GE
Sbjct: 504 GPAGPRGERGPXGE 517
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 56/187 (29%), Positives = 71/187 (37%), Gaps = 59/187 (31%)
Query: 290 RKDLLDHQGDKGWPGIDGTPGQDGIPGLKGEKG----HGIKGEPGINGT----------- 334
R H+G++G+ G G G G PG G G HG +GEPG G+
Sbjct: 859 RDGQXGHKGERGYXGNIGPTGAAGAPGPHGSVGPAGKHGNRGEPGPAGSVGPVGAVGPRG 918
Query: 335 ----HGVKGEKGQPGGIGYKGEPGQDGAKGDSGGRCIGCLPGARGEKGDRXXXXXXXXXX 390
G++G+KG+PG G +G PG G G G LPG G GD+
Sbjct: 919 PSGPQGIRGDKGEPGDXGARGLPGLKGHNGLQG------LPGLAGLHGDQG--------- 963
Query: 391 XXXXXXXXXXXXXXXXXXXXXXXXVWTSDNLIKGERGPPGLKGDIGRDGPMGPPGPKGVI 450
G RGP G G IG+DG G PGP G
Sbjct: 964 -------------------------APGPVGPAGPRGPAGPSGPIGKDGRSGHPGPVGPA 998
Query: 451 GLTGDRG 457
G+ G +G
Sbjct: 999 GVRGSQG 1005
Score = 30.8 bits (68), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 46/95 (48%), Gaps = 11/95 (11%)
Query: 436 GRDGPMGPPGPKGVIGLTGDRGFNGESGEKVWKHILSSRHGDKGWPGIDGTPGQDGIPGL 495
GR G MGPPG +G G G RG NG++G ++ R G+ G+ G G G
Sbjct: 333 GRAGVMGPPGNRGSTGPAGVRGPNGDAGRXGEXGLMGPR-------GLXGSXGNVGPAGK 385
Query: 496 KGEKG-HGIKGEPGINGTHGVKGEKGQPGGIGYKG 529
+G G GI G G G G +GE G IG+ G
Sbjct: 386 EGPVGLXGIDGRXGPIGPAGPRGEAGN---IGFXG 417
>pdb|3HQV|A Chain A, Low Resolution, Molecular Envelope Structure Of Type I
Collagen In Situ Determined By Fiber Diffraction. Single
Type I Collagen Molecule, Rigid Body Refinement
pdb|3HQV|C Chain C, Low Resolution, Molecular Envelope Structure Of Type I
Collagen In Situ Determined By Fiber Diffraction. Single
Type I Collagen Molecule, Rigid Body Refinement
pdb|3HR2|A Chain A, Low Resolution, Molecular Envelope Structure Of Type I
Collagen In Situ Determined By Fiber Diffraction. Single
Type I Collagen Molecule, Post Rigid Body Refinement,
'relaxed'
pdb|3HR2|C Chain C, Low Resolution, Molecular Envelope Structure Of Type I
Collagen In Situ Determined By Fiber Diffraction. Single
Type I Collagen Molecule, Post Rigid Body Refinement,
'relaxed'
Length = 1056
Score = 33.1 bits (74), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 50/110 (45%), Gaps = 23/110 (20%)
Query: 449 VIGLTGDRGFNGESGEKVWKHILSSRHGDKGWPGIDGTPGQDGIPGL------------- 495
+ G+ G+RG G G K + GD G G DG+PG+DG+ GL
Sbjct: 564 LQGMXGERGAAGLXGPKGDR-------GDAGPKGADGSPGKDGVRGLTGPIGPXGPAGAX 616
Query: 496 --KGEKG-HGIKGEPGINGTHGVKGEKGQPGGIGYKGEPGERGSTGSKGE 542
KGE G G G G G G +GE G G G+ G G G G+KGE
Sbjct: 617 GDKGEAGPSGPAGPTGARGAXGDRGEAGPXGPAGFAGPXGADGQXGAKGE 666
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 46/96 (47%), Gaps = 9/96 (9%)
Query: 447 KGVIGLTGDRGFNGESGEKVWKHILSSRHGDKGWPGIDGTPGQDGIPGLKGEKGHGIKGE 506
KG G TG G GE V G+KG G DG G G PG GI G+
Sbjct: 745 KGPRGETGPAGRXGE----VGPXGPXGPAGEKGSXGADGPAGSXGTPGP-----QGIAGQ 795
Query: 507 PGINGTHGVKGEKGQPGGIGYKGEPGERGSTGSKGE 542
G+ G G +G++G G G GE G++G +G+ GE
Sbjct: 796 RGVVGLXGQRGKRGFXGLXGPSGEXGKQGPSGASGE 831
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
0.313 0.140 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,394,434
Number of Sequences: 62578
Number of extensions: 1675154
Number of successful extensions: 5203
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2556
Number of HSP's gapped (non-prelim): 1570
length of query: 1375
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1264
effective length of database: 8,027,179
effective search space: 10146354256
effective search space used: 10146354256
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.9 bits)