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= psy4956
(361 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TDQ|A Chain A, Structural Basis For The Interactions Between Tenascins
And The C-Type Lectin Domains From Lecticans: Evidence
For A Cross-Linking Role For Tenascins
Length = 283
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 75/273 (27%), Positives = 111/273 (40%), Gaps = 20/273 (7%)
Query: 91 DPPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLK---VISLSEKTPPRIIGFTENPPAGY 147
D PT + V S A + W+PP K LK V KT R+ + P + Y
Sbjct: 16 DGPTQILVRDVSDTVAFVEWTPP-RAKVDFILLKYGLVGGEGGKTTFRL----QPPLSQY 70
Query: 148 SLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRNETTLLVLWQPSY 207
S++ L PG Y+V + +V + ES A +S FTT+ + P V R T+L + W S
Sbjct: 71 SVQALRPGSRYEVSISAVRGTNESDA-SSTQFTTEIDAPKNLRVGSRTATSLDLEWDNSE 129
Query: 208 PASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDEIS 267
+ YKV + + +G P + LVPG Y + + V + S
Sbjct: 130 AEA--QEYKVVYSTLAGEQYHEVLVPKGIGP-TTKTTLTDLVPGTEYGVGISAVMNSKQS 186
Query: 268 TPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKGFSEFDKYQVSINVRRPGASSTP 327
P T RT P +S TS SL +W G D Y+++ +S
Sbjct: 187 IPATMNARTELDSPRDLMVTASSETSISL--IWTKASG--PIDHYRITFTPSSGISSEVT 242
Query: 328 ITKSRDEPTQCDMSEGLEPGRTYQVLVKTVSGK 360
+ + R T D LEPG Y + + G+
Sbjct: 243 VPRDRTSYTLTD----LEPGAEYIISITAERGR 271
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 51/128 (39%), Gaps = 11/128 (8%)
Query: 56 FSEGLPGTKYDFYLYYTNSTVHDWLTWTASITTPPDPPTNLSVNVRSGKTAQIFW---SP 112
++ +PGT+Y + ++ + T + T D P +L V S + + W S
Sbjct: 164 LTDLVPGTEYGVGISAVMNSKQS-IPATMNARTELDSPRDLMVTASSETSISLIWTKASG 222
Query: 113 PISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYSLKDLTPGGSYQVQLFSVYDSKESV 172
PI F SE T PR Y+L DL PG Y + + + ++S+
Sbjct: 223 PIDHYRITFTPSSGISSEVTVPR-------DRTSYTLTDLEPGAEYIISITAERGRQQSL 275
Query: 173 AYTSRNFT 180
T FT
Sbjct: 276 ESTVDAFT 283
>pdb|3T1W|A Chain A, Structure Of The Four-Domain Fragment Fn7b89 Of Oncofetal
Fibronectin
Length = 375
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 83/345 (24%), Positives = 140/345 (40%), Gaps = 29/345 (8%)
Query: 24 DNSTYRLDYIPAHGHPPPNTTYVSRDIKDNIEFSEGLPGTKYDFYLYYTNSTVHDWLTWT 83
D + YR+ P +G + V + + F PG +Y+ +Y D +
Sbjct: 31 DITGYRITTTPTNGQQGNSLEEVVHADQSSCTFDNLSPGLEYNVSVYTVKD---DKESVP 87
Query: 84 ASITTPPDPP--TNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTE 141
S T P+ P T+LS + + + W+P S G+++ V++ E P F +
Sbjct: 88 ISDTIIPEVPQLTDLSFVDITDSSIGLRWTPLNSSTIIGYRITVVAAGEGIP-IFEDFVD 146
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRN--ETTL 199
+ Y++ L PG Y + + ++ + ES T T + P + F N T+
Sbjct: 147 SSVGYYTVTGLEPGIDYDISVITLINGGESAPTT---LTQQTAVPPPTDLRFTNIGPDTM 203
Query: 200 LVLWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQ 259
V W P P+ T++ V P E V + P L+PG Y +SV
Sbjct: 204 RVTWAPP-PSIDLTNFLVRYSPVKNEEDVAELSIS---PSDNAVVLTNLLPGTEYVVSVS 259
Query: 260 TVSEDEISTPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKGFSEFDKYQVSINVR 319
+V E STP + +T P D + IT+NS V W P+ + Y++ +
Sbjct: 260 SVYEQHESTPLRGRQKTGLDSPTGI--DFSDITANSFTVHWIAPR--ATITGYRIRHHPE 315
Query: 320 ----RPGASSTPITKSRDEPTQCDMSEGLEPGRTYQVLVKTVSGK 360
RP P SR+ T +++ PG Y V + ++G+
Sbjct: 316 HFSGRPREDRVP--HSRNSITLTNLT----PGTEYVVSIVALNGR 354
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 45/165 (27%), Positives = 69/165 (41%), Gaps = 20/165 (12%)
Query: 199 LLVLWQPSYPASIYTHYKVSIDPPDAP-----ESVLYVEKEGEPPGPAQAAFKGLVPGRA 253
L V W+ S I T Y+++ P + E V++ ++ + F L PG
Sbjct: 20 LTVSWERSTTPDI-TGYRITTTPTNGQQGNSLEEVVHADQ-------SSCTFDNLSPGLE 71
Query: 254 YNISVQTVSEDEISTPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKGFSEFDKYQ 313
YN+SV TV +D+ S P + IP P IT +S+ + W P S Y+
Sbjct: 72 YNVSVYTVKDDKESVPISDTI--IPEVPQLTDLSFVDITDSSIGLRWTPLNS-STIIGYR 128
Query: 314 VSINVRRPGASSTPITKS-RDEPTQCDMSEGLEPGRTYQVLVKTV 357
+++ G PI + D GLEPG Y + V T+
Sbjct: 129 ITVVAAGEGI---PIFEDFVDSSVGYYTVTGLEPGIDYDISVITL 170
>pdb|1FNF|A Chain A, Fragment Of Human Fibronectin Encompassing Type-Iii
Repeats 7 Through 10
Length = 368
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 56/220 (25%), Positives = 88/220 (40%), Gaps = 12/220 (5%)
Query: 89 PPDPPTNLSVNVR-SGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGY 147
P PPTNL + + W + +G+++ + + + +
Sbjct: 1 PLSPPTNLHLEANPDTGVLTVSWERSTTPDITGYRITTTPTNGQQGNSLEEVVHADQSSC 60
Query: 148 SLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRN--ETTLLVLWQP 205
+ +L+PG Y V +++V D KESV + T P P + F N T+ V W P
Sbjct: 61 TFDNLSPGLEYNVSVYTVKDDKESVPISD---TIIPAVPPPTDLRFTNIGPDTMRVTWAP 117
Query: 206 SYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDE 265
P+ T++ V P E V + P L+PG Y +SV +V E
Sbjct: 118 P-PSIDLTNFLVRYSPVKNEEDVAELSIS---PSDNAVVLTNLLPGTEYVVSVSSVYEQH 173
Query: 266 ISTPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKG 305
STP + +T P D + IT+NS V W P+
Sbjct: 174 ESTPLRGRQKTGLDSPTGI--DFSDITANSFTVHWIAPRA 211
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 77/352 (21%), Positives = 129/352 (36%), Gaps = 44/352 (12%)
Query: 24 DNSTYRLDYIPAHGHPPPNTTYVSRDIKDNIEFSEGLPGTKYDFYLYYTNSTVHDWLTWT 83
D + YR+ P +G + V + + F PG +Y+ +Y + + +
Sbjct: 30 DITGYRITTTPTNGQQGNSLEEVVHADQSSCTFDNLSPGLEYNVSVYTVKDD-KESVPIS 88
Query: 84 ASITTPPDPPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKV--ISLSEKTPPRIIGFTE 141
+I PPT+L T ++ W+PP S + F ++ + E I ++
Sbjct: 89 DTIIPAVPPPTDLRFTNIGPDTMRVTWAPPPSIDLTNFLVRYSPVKNEEDVAELSISPSD 148
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRNETTLLV 201
N L +L PG Y V + SVY+ ES R T ++P + V
Sbjct: 149 N---AVVLTNLLPGTEYVVSVSSVYEQHESTPLRGRQ-KTGLDSPTGIDFSDITANSFTV 204
Query: 202 LWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQA-AFKGLVPGRAYNISVQT 260
W P + T Y++ PE +E P + L PG Y +S+
Sbjct: 205 HWI--APRATITGYRIR----HHPEHFSGRPREDRVPHSRNSITLTNLTPGTEYVVSIVA 258
Query: 261 VSEDEISTPTTAQYRTIPLRP------------LSFTYDKASITSNSLRVVWEPPKGFSE 308
++ E S Q T+ P L ++D ++T R+ + G S
Sbjct: 259 LNGREESPLLIGQQSTVSDVPRDLEVVAATPTSLLISWDAPAVTVRYYRITYGETGGNSP 318
Query: 309 FDKYQVSINVRRPGASSTPITKSRDEPTQCDMSEGLEPGRTYQVLVKTVSGK 360
++ V PG+ ST GL+PG Y + V V+G+
Sbjct: 319 VQEFTV------PGSKSTATIS------------GLKPGVDYTITVYAVTGR 352
>pdb|4GH7|B Chain B, Crystal Structure Of Anticalin N7a In Complex With
Oncofetal Fibronectin Fragment Fn7b8
pdb|4GH7|D Chain D, Crystal Structure Of Anticalin N7a In Complex With
Oncofetal Fibronectin Fragment Fn7b8
Length = 285
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 62/257 (24%), Positives = 104/257 (40%), Gaps = 15/257 (5%)
Query: 24 DNSTYRLDYIPAHGHPPPNTTYVSRDIKDNIEFSEGLPGTKYDFYLYYTNSTVHDWLTWT 83
D + YR+ P +G + V + + F PG +Y+ +Y D +
Sbjct: 31 DITGYRITTTPTNGQQGNSLEEVVHADQSSCTFDNLSPGLEYNVSVYTVK---DDKESVP 87
Query: 84 ASITTPPDPP--TNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTE 141
S T P+ P T+LS + + + W+P S G+++ V++ E P F +
Sbjct: 88 ISDTIIPEVPQLTDLSFVDITDSSIGLRWTPLNSSTIIGYRITVVAAGEGIP-IFEDFVD 146
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRN--ETTL 199
+ Y++ L PG Y + + ++ + ES T T + P + F N T+
Sbjct: 147 SSVGYYTVTGLEPGIDYDISVITLINGGESAPTT---LTQQTAVPPPTDLRFTNIGPDTM 203
Query: 200 LVLWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQ 259
V W P P+ T++ V P E V + P L+PG Y +SV
Sbjct: 204 RVTWAPP-PSIDLTNFLVRYSPVKNEEDVAELSIS---PSDNAVVLTNLLPGTEYVVSVS 259
Query: 260 TVSEDEISTPTTAQYRT 276
+V E STP + +T
Sbjct: 260 SVYEQHESTPLRGRQKT 276
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 45/165 (27%), Positives = 69/165 (41%), Gaps = 20/165 (12%)
Query: 199 LLVLWQPSYPASIYTHYKVSIDPPDAP-----ESVLYVEKEGEPPGPAQAAFKGLVPGRA 253
L V W+ S I T Y+++ P + E V++ ++ + F L PG
Sbjct: 20 LTVSWERSTTPDI-TGYRITTTPTNGQQGNSLEEVVHADQ-------SSCTFDNLSPGLE 71
Query: 254 YNISVQTVSEDEISTPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKGFSEFDKYQ 313
YN+SV TV +D+ S P + IP P IT +S+ + W P S Y+
Sbjct: 72 YNVSVYTVKDDKESVPISDTI--IPEVPQLTDLSFVDITDSSIGLRWTPLNS-STIIGYR 128
Query: 314 VSINVRRPGASSTPITKS-RDEPTQCDMSEGLEPGRTYQVLVKTV 357
+++ G PI + D GLEPG Y + V T+
Sbjct: 129 ITVVAAGEGI---PIFEDFVDSSVGYYTVTGLEPGIDYDISVITL 170
>pdb|2GEE|A Chain A, Crystal Structure Of Human Type Iii Fibronectin
Extradomain B And Domain 8
Length = 203
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 79/186 (42%), Gaps = 10/186 (5%)
Query: 93 PTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYSLKDL 152
PT+LS + + + W+P S G+++ V++ E P F ++ Y++ L
Sbjct: 26 PTDLSFVDITDSSIGLRWTPLNSSTIIGYRITVVAAGEGIP-IFEDFVDSSVGYYTVTGL 84
Query: 153 TPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRN--ETTLLVLWQPSYPAS 210
PG Y + +++V + ES T T + P + F N T+ V W P P+
Sbjct: 85 EPGIDYDISVYTVKNGGES---TPTTLTQQTAVPPPTDLRFTNIGPDTMRVTWAPP-PSI 140
Query: 211 IYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDEISTPT 270
T++ V P E V + P L+PG Y +SV +V E STP
Sbjct: 141 DLTNFLVRYSPVKNEEDVAELSIS---PSDNAVVLTNLLPGTEYVVSVSSVYEQHESTPL 197
Query: 271 TAQYRT 276
+ +T
Sbjct: 198 RGRQKT 203
Score = 35.8 bits (81), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 26/59 (44%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 247 GLVPGRAYNISVQTVSEDEISTPTTAQYRTI--PLRPLSFTYDKASITSNSLRVVWEPP 303
GL PG Y+ISV TV STPTT +T P L FT +I +++RV W PP
Sbjct: 83 GLEPGIDYDISVYTVKNGGESTPTTLTQQTAVPPPTDLRFT----NIGPDTMRVTWAPP 137
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 49/122 (40%), Gaps = 6/122 (4%)
Query: 61 PGTKYDFYLYYTNSTVHDWLTWTASITTPPDPPTNLSVNVRSGKTAQIFWSPPISGKYSG 120
PG YD +Y + T T P PPT+L T ++ W+PP S +
Sbjct: 86 PGIDYDISVYTVKNGGESTPTTLTQQTAVP-PPTDLRFTNIGPDTMRVTWAPPPSIDLTN 144
Query: 121 FKLKV--ISLSEKTPPRIIGFTENPPAGYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRN 178
F ++ + E I ++N L +L PG Y V + SVY+ ES R
Sbjct: 145 FLVRYSPVKNEEDVAELSISPSDN---AVVLTNLLPGTEYVVSVSSVYEQHESTPLRGRQ 201
Query: 179 FT 180
T
Sbjct: 202 KT 203
>pdb|1FNH|A Chain A, Crystal Structure Of Heparin And Integrin Binding Segment
Of Human Fibronectin
Length = 271
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 62/255 (24%), Positives = 104/255 (40%), Gaps = 21/255 (8%)
Query: 28 YRLDYIPAHGHPPPNTTYVSRDIKDNIEFSEGLPGTKYDFYLYYTNSTVHDWLT---WTA 84
YR+ P P ++ D ++ S + TKY+ +Y + D LT
Sbjct: 32 YRVRVTPKEKTGPMKEINLAPD-SSSVVVSGLMVATKYEVSVY----ALKDTLTSRPAQG 86
Query: 85 SITTPPD--PPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTEN 142
+TT + PP V + T I W + +GF++ + + +TP I T
Sbjct: 87 VVTTLENVSPPRRARVTDATETTITISWRTK-TETITGFQVDAVPANGQTP---IQRTIK 142
Query: 143 PPA-GYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRNETTLLV 201
P Y++ L PG Y++ L+++ D+ S + +T + P +LLV
Sbjct: 143 PDVRSYTITGLQPGTDYKIYLYTLNDNARSSPVVI-DASTAIDAPSNLRFLATTPNSLLV 201
Query: 202 LWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTV 261
WQP P + T Y + + P +P + PG +A GL PG Y I V +
Sbjct: 202 SWQP--PRARITGYIIKYEKPGSPPREVVPRPR---PGVTEATITGLEPGTEYTIYVIAL 256
Query: 262 SEDEISTPTTAQYRT 276
++ S P + +T
Sbjct: 257 KNNQKSEPLIGRKKT 271
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 60/268 (22%), Positives = 112/268 (41%), Gaps = 25/268 (9%)
Query: 93 PTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYSLKDL 152
PT+L + + W+PP + + +G++++V + P + I + + + L
Sbjct: 5 PTDLKFTQVTPTSLSAQWTPP-NVQLTGYRVRVTPKEKTGPMKEINLAPDS-SSVVVSGL 62
Query: 153 TPGGSYQVQLFSVYDS-----KESVAYTSRNFTTKPNTPGKFIVWFRNETTLLVLWQPSY 207
Y+V ++++ D+ + V T N + P + V ETT+ + W+
Sbjct: 63 MVATKYEVSVYALKDTLTSRPAQGVVTTLENV----SPPRRARVTDATETTITISWRTK- 117
Query: 208 PASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDEIS 267
T ++V P + + K P GL PG Y I + T++++ S
Sbjct: 118 -TETITGFQVDAVPANGQTPIQRTIK----PDVRSYTITGLQPGTDYKIYLYTLNDNARS 172
Query: 268 TPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKGFSEFDKYQVSINVRRPGASSTP 327
+P T P + + + T NSL V W+PP+ + Y I +PG+
Sbjct: 173 SPVVIDASTAIDAPSNLRF--LATTPNSLLVSWQPPR--ARITGY--IIKYEKPGSPPRE 226
Query: 328 IT-KSRDEPTQCDMSEGLEPGRTYQVLV 354
+ + R T+ ++ GLEPG Y + V
Sbjct: 227 VVPRPRPGVTEATIT-GLEPGTEYTIYV 253
>pdb|3R8Q|A Chain A, Structure Of Fibronectin Domain 12-14
Length = 290
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 62/255 (24%), Positives = 104/255 (40%), Gaps = 21/255 (8%)
Query: 28 YRLDYIPAHGHPPPNTTYVSRDIKDNIEFSEGLPGTKYDFYLYYTNSTVHDWLT---WTA 84
YR+ P P ++ D ++ S + TKY+ +Y + D LT
Sbjct: 51 YRVRVTPKEKTGPMKEINLAPD-SSSVVVSGLMVATKYEVSVY----ALKDTLTSRPAQG 105
Query: 85 SITTPPD--PPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTEN 142
+TT + PP V + T I W + +GF++ + + +TP I T
Sbjct: 106 VVTTLENVSPPRRARVTDATETTITISWRTK-TETITGFQVDAVPANGQTP---IQRTIK 161
Query: 143 PPA-GYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRNETTLLV 201
P Y++ L PG Y++ L+++ D+ S + +T + P +LLV
Sbjct: 162 PDVRSYTITGLQPGTDYKIYLYTLNDNARSSPVVI-DASTAIDAPSNLRFLATTPNSLLV 220
Query: 202 LWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTV 261
WQP P + T Y + + P +P + PG +A GL PG Y I V +
Sbjct: 221 SWQP--PRARITGYIIKYEKPGSPPREVVPRPR---PGVTEATITGLEPGTEYTIYVIAL 275
Query: 262 SEDEISTPTTAQYRT 276
++ S P + +T
Sbjct: 276 KNNQKSEPLIGRKKT 290
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 60/268 (22%), Positives = 112/268 (41%), Gaps = 25/268 (9%)
Query: 93 PTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYSLKDL 152
PT+L + + W+PP + + +G++++V + P + I + + + L
Sbjct: 24 PTDLKFTQVTPTSLSAQWTPP-NVQLTGYRVRVTPKEKTGPMKEINLAPDS-SSVVVSGL 81
Query: 153 TPGGSYQVQLFSVYDS-----KESVAYTSRNFTTKPNTPGKFIVWFRNETTLLVLWQPSY 207
Y+V ++++ D+ + V T N + P + V ETT+ + W+
Sbjct: 82 MVATKYEVSVYALKDTLTSRPAQGVVTTLENV----SPPRRARVTDATETTITISWRTK- 136
Query: 208 PASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDEIS 267
T ++V P + + K P GL PG Y I + T++++ S
Sbjct: 137 -TETITGFQVDAVPANGQTPIQRTIK----PDVRSYTITGLQPGTDYKIYLYTLNDNARS 191
Query: 268 TPTTAQYRTIPLRPLSFTYDKASITSNSLRVVWEPPKGFSEFDKYQVSINVRRPGASSTP 327
+P T P + + + T NSL V W+PP+ + Y I +PG+
Sbjct: 192 SPVVIDASTAIDAPSNLRF--LATTPNSLLVSWQPPR--ARITGY--IIKYEKPGSPPRE 245
Query: 328 IT-KSRDEPTQCDMSEGLEPGRTYQVLV 354
+ + R T+ ++ GLEPG Y + V
Sbjct: 246 VVPRPRPGVTEATIT-GLEPGTEYTIYV 272
>pdb|1QR4|A Chain A, Two Fibronectin Type-Iii Domain Segment From Chicken
Tenascin
pdb|1QR4|B Chain B, Two Fibronectin Type-Iii Domain Segment From Chicken
Tenascin
Length = 186
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 49/185 (26%), Positives = 77/185 (41%), Gaps = 20/185 (10%)
Query: 178 NFTTKPNTPGKFIVWFRNETTLLVLWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEP 237
N T + P V ETTL + W+ P + + Y+++ P ++ + + P
Sbjct: 2 NAGTDLDNPKDLEVSDPTETTLSLRWR--RPVAKFDRYRLTYVSPSGKKNEMEI-----P 54
Query: 238 PGPAQAAFKGLVPGRAYNISVQTVSEDEISTPTTAQYRTIPLRPLSFTYDKASITSNSLR 297
+GL G Y IS+ S PTT + T+ P ++ + IT NS
Sbjct: 55 VDSTSFILRGLDAGTEYTISLVAEKGRHKSKPTTIKGSTVVGSPKGISF--SDITENSAT 112
Query: 298 VVWEPPKGFSEFDKYQVS---INVRRPGASSTPITKSRDEPTQCDMSEGLEPGRTYQVLV 354
V W PP+ S D Y+VS I P + +K+R + + L PG Y V +
Sbjct: 113 VSWTPPR--SRVDSYRVSYVPITGGTPNVVTVDGSKTRTKLVK------LVPGVDYNVNI 164
Query: 355 KTVSG 359
+V G
Sbjct: 165 ISVKG 169
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 47/192 (24%), Positives = 78/192 (40%), Gaps = 17/192 (8%)
Query: 88 TPPDPPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGY 147
T D P +L V+ + T + W P++ K+ ++L +S S K I +
Sbjct: 5 TDLDNPKDLEVSDPTETTLSLRWRRPVA-KFDRYRLTYVSPSGKKNEMEIPVDS---TSF 60
Query: 148 SLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPNTPGKFIVWFRN--ETTLLVLWQP 205
L+ L G Y + L + +S T + T + G + F + E + V W P
Sbjct: 61 ILRGLDAGTEYTISLVAEKGRHKSKPTTIKGSTVVGSPKG---ISFSDITENSATVSWTP 117
Query: 206 SYPASIYTHYKVSIDP-PDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSED 264
P S Y+VS P +V+ V+ + LVPG YN+++ +V
Sbjct: 118 --PRSRVDSYRVSYVPITGGTPNVVTVDGS-----KTRTKLVKLVPGVDYNVNIISVKGF 170
Query: 265 EISTPTTAQYRT 276
E S P + +T
Sbjct: 171 EESEPISGILKT 182
>pdb|1X5H|A Chain A, The Solution Structure Of The Third Fibronectin Type Iii
Domain Of Human Neogenin
Length = 132
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 9/71 (12%)
Query: 89 PPDPPTNLSVNVRSGKTAQIFWSPPI----SGKYSGFKLKVISLSEKTPPRIIGFTENPP 144
P P NLS+ VR+ K+ I W PP +G+ +G+K++ S K+ TE
Sbjct: 18 PSAAPQNLSLEVRNSKSIMIHWQPPAPATQNGQITGYKIRYRKASRKSD-----VTETLV 72
Query: 145 AGYSLKDLTPG 155
+G L L G
Sbjct: 73 SGTQLSQLIEG 83
>pdb|2DKM|A Chain A, Solution Structures Of The Fn3 Domain Of Human Collagen
Alpha-1(Xx) Chain
Length = 104
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 36/81 (44%), Gaps = 10/81 (12%)
Query: 198 TLLVLWQPSYPASIYTHYKVSIDP--PDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYN 255
T+ + WQPS A THY V P P E V+ G + GL PGR Y
Sbjct: 24 TVHLTWQPSAGA---THYLVRCSPASPKGEEEEREVQV-----GRPEVLLDGLEPGRDYE 75
Query: 256 ISVQTVSEDEISTPTTAQYRT 276
+SVQ++ E S + RT
Sbjct: 76 VSVQSLRGPEGSEARGIRART 96
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 13/75 (17%)
Query: 289 ASITSNSLRVVWEPPKGFSEFDKYQVSINVRRPGASSTPITKSRDEPTQCDMSE----GL 344
A++T ++ + W+P G + Y V + ++P + + Q E GL
Sbjct: 18 AAVTPRTVHLTWQPSAGATH---YLVRCS------PASPKGEEEEREVQVGRPEVLLDGL 68
Query: 345 EPGRTYQVLVKTVSG 359
EPGR Y+V V+++ G
Sbjct: 69 EPGRDYEVSVQSLRG 83
>pdb|3TEU|A Chain A, Crystal Structure Of Fibcon
Length = 98
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 6/83 (7%)
Query: 91 DPPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYS-- 148
D PT+L V + + + W+PP S +G+++ + P+ + PP+ S
Sbjct: 3 DAPTDLQVTNVTDTSITVSWTPP-SATITGYRITYTPSNGPGEPKELTV---PPSSTSVT 58
Query: 149 LKDLTPGGSYQVQLFSVYDSKES 171
+ LTPG Y V ++++ D++ES
Sbjct: 59 ITGLTPGVEYVVSVYALKDNQES 81
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 184 NTPGKFIVWFRNETTLLVLWQPSYPASIYTHYKVSIDPPDAPESVLYVEKEGEPPGPAQA 243
+ P V +T++ V W P P++ T Y+++ P + P ++ PP
Sbjct: 3 DAPTDLQVTNVTDTSITVSWTP--PSATITGYRITYTPSNGPGEP---KELTVPPSSTSV 57
Query: 244 AFKGLVPGRAYNISVQTVSEDEISTP 269
GL PG Y +SV + +++ S P
Sbjct: 58 TITGLTPGVEYVVSVYALKDNQESPP 83
>pdb|2CRM|A Chain A, Solution Structure Of The Forth Fniii Domain Of Human
Length = 120
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 9/84 (10%)
Query: 277 IPLRPLSFTYDKASITSNSLRVVWEPPK--GFSEFDKYQVSINVRRPGASSTPITKSRDE 334
IP++P K I S+S ++ W+PPK G + +KY V + G I
Sbjct: 20 IPVKPSV----KGKIHSHSFKITWDPPKDNGGATINKYVVEMAEGSNGNKWEMIYSGATR 75
Query: 335 PTQCDMSEGLEPGRTYQVLVKTVS 358
CD L PG Y++ V +S
Sbjct: 76 EHLCDR---LNPGCFYRLRVYCIS 96
>pdb|3S30|A Chain A, Crystal Structure Of A Hypothetical Glycoside Hydrolase
(Bvu_0247) From Bacteroides Vulgatus Atcc 8482 At 2.46 A
Resolution
pdb|3S30|B Chain B, Crystal Structure Of A Hypothetical Glycoside Hydrolase
(Bvu_0247) From Bacteroides Vulgatus Atcc 8482 At 2.46 A
Resolution
Length = 354
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 9/65 (13%)
Query: 53 NIEFSEGLPGTKYDFYLYYTNSTVHDWLTW---------TASITTPPDPPTNLSVNVRSG 103
N E + +P K ++Y+ Y ++ + LTW T S TP D PT++S N R+G
Sbjct: 105 NFENVKTVPYNKNEYYVLYEAASGYSTLTWSSGNQGFALTGSGYTPNDFPTSISPNGRTG 164
Query: 104 KTAQI 108
Q+
Sbjct: 165 NCLQL 169
>pdb|2FNA|A Chain A, Crystal Structure Of An Archaeal Aaa+ Atpase (Sso1545)
From Sulfolobus Solfataricus P2 At 2.00 A Resolution
pdb|2FNA|B Chain B, Crystal Structure Of An Archaeal Aaa+ Atpase (Sso1545)
From Sulfolobus Solfataricus P2 At 2.00 A Resolution
Length = 357
Score = 31.2 bits (69), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 49 DIKDNIEFSEGLPGTKYDFYLYYTNSTVHDWLTWTASITTPPDPPTNLS 97
D+K +E EG+ + + Y Y T T H W+ P +P +L+
Sbjct: 307 DVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKEGEKYCPSEPLISLA 355
>pdb|2NZI|A Chain A, Crystal Structure Of Domains A168-A170 From Titin
pdb|2NZI|B Chain B, Crystal Structure Of Domains A168-A170 From Titin
Length = 305
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 63/164 (38%), Gaps = 8/164 (4%)
Query: 5 VHGVHGANLVIKIPENLSSD---NSTYRLDYIPAHGHPPPNTTYVSRDIKDNIEFSEGLP 61
VH + G + IKIP + D D I +GH V+R ++ F G+
Sbjct: 114 VHALRGEVVSIKIPFSGKPDPVITWQKGQDLIDNNGH---YQVIVTRSFT-SLVFPNGVE 169
Query: 62 GTKYDFYLYYT-NSTVHDWLTWTASITTPPDPPTNLSVNVRSGKTAQIFWSPPISGKYSG 120
FY+ N D T + PDPP + V+ S + + W+ P S S
Sbjct: 170 RKDAGFYVVCAKNRFGIDQKTVELDVADVPDPPRGVKVSDVSRDSVNLTWTEPASDGGSK 229
Query: 121 FKLKVISLSEKTPPRIIGFTENPPAGYSLKDLTPGGSYQVQLFS 164
++ T R + + Y++ +L SYQ ++ +
Sbjct: 230 ITNYIVEKCATTAERWLRVGQARETRYTVINLFGKTSYQFRVIA 273
>pdb|2ED9|A Chain A, Solution Structure Of The Third Fibronectin Type Iii
Domain Of Human Netrin Receptor Dcc
Length = 124
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 89 PPDPPTNLSVNVRSGKTAQIFWSPPISGKYSGF 121
P PP N+S+ V + ++ ++ W PP SG +GF
Sbjct: 28 PSAPPQNVSLEVVNSRSIKVSWLPPPSGTQNGF 60
>pdb|3CGM|A Chain A, Crystal Structure Of Thermophilic Slyd
pdb|3CGN|A Chain A, Crystal Structure Of Thermophilic Slyd
pdb|3LUO|A Chain A, Crystal Structure And Functional Characterization Of The
The Prolyl Isomerase And Chaperone Slyd
Length = 158
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 26/45 (57%)
Query: 93 PTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRII 137
P L+V G+ + ++ P++GK F+++V+ + E TP ++
Sbjct: 100 PMPLTVVAVEGEEVTVDFNHPLAGKDLDFQVEVVKVREATPEELL 144
>pdb|1MFN|A Chain A, Solution Nmr Structure Of Linked Cell Attachment Modules
Of Mouse Fibronectin Containing The Rgd And Synergy
Regions, 20 Structures
pdb|2MFN|A Chain A, Solution Nmr Structure Of Linked Cell Attachment Modules
Of Mouse Fibronectin Containing The Rgd And Synergy
Regions, 10 Structures
Length = 184
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 33/80 (41%), Gaps = 2/80 (2%)
Query: 224 APESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDEISTPTTAQYRTIPLRPLS 283
A SV ++ PP L PG Y +S+ V+ E S P Q T+ P
Sbjct: 38 AEHSVGRPRQDRVPPSRNSITLTNLNPGTEYVVSIIAVNGREESPPLIGQQATVSDIPRD 97
Query: 284 FTYDKASITSNSLRVVWEPP 303
+ + T SL + WEPP
Sbjct: 98 L--EVIASTPTSLLISWEPP 115
>pdb|2RB8|A Chain A, High Resolution Design Of A Protein Loop
Length = 104
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 32/74 (43%), Gaps = 2/74 (2%)
Query: 91 DPPTNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYSLK 150
D P+ + V + TA I W PP S GF+L I TE+ YS+
Sbjct: 4 DAPSQIEVKDVTDTTALITWMPP-SQPVDGFELTYGIKDVPGDRTTIDLTEDENQ-YSIG 61
Query: 151 DLTPGGSYQVQLFS 164
+L P Y+V L S
Sbjct: 62 NLKPDTEYEVSLIS 75
>pdb|2VBI|A Chain A, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|B Chain B, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|C Chain C, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|D Chain D, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|E Chain E, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|F Chain F, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|G Chain G, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
pdb|2VBI|H Chain H, Holostructure Of Pyruvate Decarboxylase From Acetobacter
Pasteurianus
Length = 566
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 30/53 (56%), Gaps = 5/53 (9%)
Query: 249 VPGRAYN-----ISVQTVSEDEISTPTTAQYRTIPLRPLSFTYDKASITSNSL 296
V GRAY+ +Q ++E + P +AQ ++P L+ T D+A +T++ +
Sbjct: 314 VDGRAYDGFTLRAFLQALAEKAPARPASAQKSSVPTCSLTATSDEAGLTNDEI 366
>pdb|2FNB|A Chain A, Nmr Structure Of The Fibronectin Ed-B Domain, Nmr, 20
Structures
Length = 95
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 1/78 (1%)
Query: 94 TNLSVNVRSGKTAQIFWSPPISGKYSGFKLKVISLSEKTPPRIIGFTENPPAGYSLKDLT 153
T+LS + + + W+P S G+++ V++ E P F ++ Y++ L
Sbjct: 10 TDLSFVDITDSSIGLRWTPLNSSTIIGYRITVVAAGEGIPI-FEDFVDSSVGYYTVTGLE 68
Query: 154 PGGSYQVQLFSVYDSKES 171
PG Y + + ++ + ES
Sbjct: 69 PGIDYDISVITLINGGES 86
>pdb|1F6F|B Chain B, Crystal Structure Of The Ternary Complex Between Ovine
Placental Lactogen And The Extracellular Domain Of The
Rat Prolactin Receptor
pdb|1F6F|C Chain C, Crystal Structure Of The Ternary Complex Between Ovine
Placental Lactogen And The Extracellular Domain Of The
Rat Prolactin Receptor
Length = 210
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 16/108 (14%)
Query: 90 PDPPTNLSVNVRSGKTAQIF----WSPP----ISGKYSGFKLKVISLSEKTPPRIIGFTE 141
P+PP NL++ V+ K + + WSPP + + + ++ E+ I FT
Sbjct: 103 PEPPRNLTLEVKQLKDKKTYLWVKWSPPTITDVKTGWFTMEYEIRLKPEEAEEWEIHFTG 162
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYD-------SKESVAYTSRNFTTK 182
+ + + DL PG Y VQ D S+ES +FT K
Sbjct: 163 H-QTQFKVFDLYPGQKYLVQTRCKPDHGYWSRWSQESSVEMPNDFTLK 209
>pdb|3EW3|B Chain B, The 1:2 Complex Between A Nterminal Elongated Prolactin
And Cellular Domain Of The Rat Prolactin Receptor
pdb|3EW3|C Chain C, The 1:2 Complex Between A Nterminal Elongated Prolactin
And Cellular Domain Of The Rat Prolactin Receptor
Length = 221
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 16/108 (14%)
Query: 90 PDPPTNLSVNVRSGKTAQIF----WSPP----ISGKYSGFKLKVISLSEKTPPRIIGFTE 141
P+PP NL++ V+ K + + WSPP + + + ++ E+ I FT
Sbjct: 104 PEPPRNLTLEVKQLKDKKTYLWVKWSPPTITDVKTGWFTMEYEIRLKPEEAEEWEIHFTG 163
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYD-------SKESVAYTSRNFTTK 182
+ + + DL PG Y VQ D S+ES +FT K
Sbjct: 164 H-QTQFKVFDLYPGQKYLVQTRCKPDHGYWSRWSQESSVEMPNDFTLK 210
>pdb|3NPZ|B Chain B, Prolactin Receptor (Prlr) Complexed With The Natural
Hormone (Prl)
pdb|3NPZ|C Chain C, Prolactin Receptor (Prlr) Complexed With The Natural
Hormone (Prl)
Length = 220
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 16/108 (14%)
Query: 90 PDPPTNLSVNVRSGKTAQIF----WSPP----ISGKYSGFKLKVISLSEKTPPRIIGFTE 141
P+PP NL++ V+ K + + WSPP + + + ++ E+ I FT
Sbjct: 103 PEPPRNLTLEVKQLKDKKTYLWVKWSPPTITDVKTGWFTMEYEIRLKPEEAEEWEIHFTG 162
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYD-------SKESVAYTSRNFTTK 182
+ + + DL PG Y VQ D S+ES +FT K
Sbjct: 163 H-QTQFKVFDLYPGQKYLVQTRCKPDHGYWSRWSQESSVEMPNDFTLK 209
>pdb|1GR2|A Chain A, Structure Of A Glutamate Receptor Ligand Binding Core
(Glur2) Complexed With Kainate
pdb|1FTK|A Chain A, Crystal Structure Of The Glur2 Ligand Binding Core (S1s2i)
In Complex With Kainate At 1.6 A Resolution
Length = 279
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 284 FTYDKASITSN--SLRVVWEPPKGFSE-FDKYQVSINVRRPGASSTPITKSRDEPTQCDM 340
Y KA I ++ +V E FS+ F +SI +++PG PI + D Q ++
Sbjct: 90 LVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPGTDGNPIESAEDLSKQTEI 149
Query: 341 SEG-LEPGRTYQVLVKT 356
+ G L+ G T + ++
Sbjct: 150 AYGTLDSGSTKEFFRRS 166
>pdb|3NCC|B Chain B, A Human Prolactin Receptor Antagonist In Complex With The
Mutant Extracellular Domain H188a Of The Human Prolactin
Receptor
pdb|3NCE|B Chain B, A Mutant Human Prolactin Receptor Antagonist H27a In
Complex With The Mutant Extracellular Domain H188a Of
The Human Prolactin Receptor
pdb|3NCF|B Chain B, A Mutant Human Prolactin Receptor Antagonist H30a In
Complex With The Mutant Extracellular Domain H188a Of
The Human Prolactin Receptor
Length = 210
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 43/103 (41%), Gaps = 9/103 (8%)
Query: 90 PDPPTNLSVNVRSGKTAQ----IFWSPP--ISGKYSGFKL--KVISLSEKTPPRIIGFTE 141
PDPP L+V V+ + + I WSPP I K F L ++ EK I F
Sbjct: 103 PDPPLELAVEVKQPEDRKPYLWIKWSPPTLIDLKTGWFTLLYEIRLKPEKAAEWEIHFA- 161
Query: 142 NPPAGYSLKDLTPGGSYQVQLFSVYDSKESVAYTSRNFTTKPN 184
+ + L PG Y VQ+ D+ A++ F P+
Sbjct: 162 GQQTEFKILSLHPGQKYLVQVRCKPDAGYWSAWSPATFIQIPS 204
>pdb|3IDX|L Chain L, Crystal Structure Of Hiv-Gp120 Core In Complex With
Cd4-Binding Site Antibody B13, Space Group C222
pdb|3IDY|L Chain L, Crystal Structure Of Hiv-Gp120 Core In Complex With
Cd4-Binding Site Antibody B13, Space Group C2221
pdb|3IDY|C Chain C, Crystal Structure Of Hiv-Gp120 Core In Complex With
Cd4-Binding Site Antibody B13, Space Group C2221
Length = 215
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 221 PPDAPESVLYVEKEGEPPGPAQAAFKGLVPGRAYNISVQTVSEDEISTPTTAQYRTIPL 279
P AP+ ++Y E P++ F G GR + ++ ++ ++++T Q++ +PL
Sbjct: 40 PGKAPKLLIYDASNSETGVPSR--FSGSGSGRDFTFTISSLQPEDVATYYCQQHQNVPL 96
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 0.133 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,542,039
Number of Sequences: 62578
Number of extensions: 557197
Number of successful extensions: 1212
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 54
Number of HSP's that attempted gapping in prelim test: 1146
Number of HSP's gapped (non-prelim): 90
length of query: 361
length of database: 14,973,337
effective HSP length: 100
effective length of query: 261
effective length of database: 8,715,537
effective search space: 2274755157
effective search space used: 2274755157
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)