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= 032540
(138 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T3K|A Chain A, Nmr Structure Of A Cdc25-Like Dual-Specificity Tyrosine
Phosphatase Of Arabidopsis Thaliana
Length = 152
Score = 204 bits (520), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 95/124 (76%), Positives = 106/124 (85%)
Query: 1 MARSISYISGSQLLSLKRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEV 60
MARSISYI+ +QLL L RRPNIA+IDVRD+ER+YDGHI GSLHY S SF DKI L+Q V
Sbjct: 23 MARSISYITSTQLLPLHRRPNIAIIDVRDEERNYDGHIAGSLHYASGSFDDKISHLVQNV 82
Query: 61 RGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGINSIFVLERGFKGWEASGKPVCRC 120
+ KDTLVFH ALSQVRGPTCA+RL NYLDE KEDTGI +I +LERGF GWEASGKPVCRC
Sbjct: 83 KDKDTLVFHSALSQVRGPTCARRLVNYLDEKKEDTGIKNIMILERGFNGWEASGKPVCRC 142
Query: 121 TDVP 124
+VP
Sbjct: 143 AEVP 146
>pdb|2J6P|A Chain A, Structure Of As-Sb Reductase From Leishmania Major
pdb|2J6P|B Chain B, Structure Of As-Sb Reductase From Leishmania Major
pdb|2J6P|C Chain C, Structure Of As-Sb Reductase From Leishmania Major
pdb|2J6P|D Chain D, Structure Of As-Sb Reductase From Leishmania Major
pdb|2J6P|E Chain E, Structure Of As-Sb Reductase From Leishmania Major
pdb|2J6P|F Chain F, Structure Of As-Sb Reductase From Leishmania Major
Length = 152
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 62/114 (54%), Gaps = 13/114 (11%)
Query: 6 SYISGSQLLSLKRRPN----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEV- 60
+YI +L+ L P+ AVID RD +R G I S++ P+ S T+++++ + +
Sbjct: 5 TYIKPEELVELLDNPDSLVKAAVIDCRDSDRDC-GFIVNSINMPTISCTEEMYEKLAKTL 63
Query: 61 --RGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGINSIFVLERGFKGWEA 112
K+ VFHCA S VR P A R A L + K + +++VL RG GWEA
Sbjct: 64 FEEKKELAVFHCAQSLVRAPKGANRFA--LAQKKLGYVLPAVYVL-RG--GWEA 112
>pdb|3F4A|A Chain A, Structure Of Ygr203w, A Yeast Protein Tyrosine Phosphatase
Of The Rhodanese Family
pdb|3F4A|B Chain B, Structure Of Ygr203w, A Yeast Protein Tyrosine Phosphatase
Of The Rhodanese Family
Length = 169
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 44/104 (42%), Gaps = 13/104 (12%)
Query: 19 RPNIAVIDVRDDERSYDGHITGSLHYPSD----------SFTDKIFDLIQEVRGKDTLVF 68
R V+DVR + GHI HY ++ + + RG ++F
Sbjct: 51 REPFQVVDVRGSDYX-GGHIKDGWHYAYSRLKQDPEYLRELKHRLLEKQADGRGALNVIF 109
Query: 69 HCALSQVRGPTCAKRLANYLDEVKEDTGINSIFVLERGFKGWEA 112
HC LSQ RGP+ A L LD + ++VL GF W++
Sbjct: 110 HCXLSQQRGPSAAXLLLRSLDTA--ELSRCRLWVLRGGFSRWQS 151
>pdb|3FS5|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Ygr203w, A
Homolog Of Single-Domain Rhodanese And Cdc25 Phosphatase
Catalytic Domain
Length = 152
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 43/104 (41%), Gaps = 13/104 (12%)
Query: 19 RPNIAVIDVRDDERSYDGHITGSLHYPSD----------SFTDKIFDLIQEVRGKDTLVF 68
R V+DVR + GHI HY ++ + + RG ++F
Sbjct: 30 REPFQVVDVRGSD-YMGGHIKDGWHYAYSRLKQDPEYLRELKHRLLEKQADGRGALNVIF 88
Query: 69 HCALSQVRGPTCAKRLANYLDEVKEDTGINSIFVLERGFKGWEA 112
H LSQ RGP+ A L LD + ++VL GF W++
Sbjct: 89 HXMLSQQRGPSAAMLLLRSLDTA--ELSRCRLWVLRGGFSRWQS 130
>pdb|2KL3|A Chain A, Solution Nmr Structure Of The Rhodanese-Like Domain From
Anabaena Sp Alr3790 Protein. Northeast Structural
Genomics Consortium Target Nsr437a
Length = 132
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 38/99 (38%), Gaps = 12/99 (12%)
Query: 19 RPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGP 78
P ++DVRD DGHI G++ P + D+ +++ R D V+ Q
Sbjct: 18 EPAFTILDVRDRSTYNDGHIMGAMAMPIEDLVDRASSSLEKSR--DIYVYGAGDEQTSQA 75
Query: 79 TCAKRLANYLDEVKEDTGINSIFVLERGFKGWEASGKPV 117
R A G + L+ G W+A G P
Sbjct: 76 VNLLRSA----------GFEHVSELKGGLAAWKAIGGPT 104
>pdb|3HIX|A Chain A, Crystal Structure Of The Rhodanese_3 Like Domain From
Anabaena Sp Alr3790 Protein. Northeast Structural
Genomics Consortium Target Nsr437i
pdb|3HIX|B Chain B, Crystal Structure Of The Rhodanese_3 Like Domain From
Anabaena Sp Alr3790 Protein. Northeast Structural
Genomics Consortium Target Nsr437i
pdb|3HIX|C Chain C, Crystal Structure Of The Rhodanese_3 Like Domain From
Anabaena Sp Alr3790 Protein. Northeast Structural
Genomics Consortium Target Nsr437i
Length = 106
Score = 35.8 bits (81), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 37/98 (37%), Gaps = 12/98 (12%)
Query: 20 PNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPT 79
P ++DVRD DGHI G+ P + D+ +++ R D V+ Q
Sbjct: 12 PAFTILDVRDRSTYNDGHIXGAXAXPIEDLVDRASSSLEKSR--DIYVYGAGDEQTSQAV 69
Query: 80 CAKRLANYLDEVKEDTGINSIFVLERGFKGWEASGKPV 117
R A G + L+ G W+A G P
Sbjct: 70 NLLRSA----------GFEHVSELKGGLAAWKAIGGPT 97
>pdb|3ILM|A Chain A, Crystal Structure Of The Alr3790 Protein From Anabaena Sp.
Northeast Structural Genomics Consortium Target Nsr437h
pdb|3ILM|B Chain B, Crystal Structure Of The Alr3790 Protein From Anabaena Sp.
Northeast Structural Genomics Consortium Target Nsr437h
pdb|3ILM|C Chain C, Crystal Structure Of The Alr3790 Protein From Anabaena Sp.
Northeast Structural Genomics Consortium Target Nsr437h
pdb|3ILM|D Chain D, Crystal Structure Of The Alr3790 Protein From Anabaena Sp.
Northeast Structural Genomics Consortium Target Nsr437h
Length = 141
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 37/98 (37%), Gaps = 12/98 (12%)
Query: 20 PNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPT 79
P ++DVRD DGHI G+ P + D+ +++ R D V+ Q
Sbjct: 16 PAFTILDVRDRSTYNDGHIXGAXAXPIEDLVDRASSSLEKSR--DIYVYGAGDEQTSQAV 73
Query: 80 CAKRLANYLDEVKEDTGINSIFVLERGFKGWEASGKPV 117
R A G + L+ G W+A G P
Sbjct: 74 NLLRSA----------GFEHVSELKGGLAAWKAIGGPT 101
>pdb|3K9R|A Chain A, X-Ray Structure Of The Rhodanese-Like Domain Of The
Alr3790 Protein From Anabaena Sp. Northeast Structural
Genomics Consortium Target Nsr437c.
pdb|3K9R|B Chain B, X-Ray Structure Of The Rhodanese-Like Domain Of The
Alr3790 Protein From Anabaena Sp. Northeast Structural
Genomics Consortium Target Nsr437c.
pdb|3K9R|C Chain C, X-Ray Structure Of The Rhodanese-Like Domain Of The
Alr3790 Protein From Anabaena Sp. Northeast Structural
Genomics Consortium Target Nsr437c.
pdb|3K9R|D Chain D, X-Ray Structure Of The Rhodanese-Like Domain Of The
Alr3790 Protein From Anabaena Sp. Northeast Structural
Genomics Consortium Target Nsr437c
Length = 115
Score = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 37/99 (37%), Gaps = 12/99 (12%)
Query: 19 RPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGP 78
P ++DVRD DGHI G+ P + D+ +++ R D V+ Q
Sbjct: 20 EPAFTILDVRDRSTYNDGHIXGAXAXPIEDLVDRASSSLEKSR--DIYVYGAGDEQTSQA 77
Query: 79 TCAKRLANYLDEVKEDTGINSIFVLERGFKGWEASGKPV 117
R A G + L+ G W+A G P
Sbjct: 78 VNLLRSA----------GFEHVSELKGGLAAWKAIGGPT 106
>pdb|2Q8A|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 34.3 bits (77), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I ID +D YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGRIDPANDNSEYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 ALSQVRG 77
LS G
Sbjct: 97 TLSHFWG 103
>pdb|2Q8B|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 34.3 bits (77), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I ID +D YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGRIDPANDNSEYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 ALSQVRG 77
LS G
Sbjct: 97 TLSHFWG 103
>pdb|1OP9|A Chain A, Complex Of Human Lysozyme With Camelid Vhh Hl6 Antibody
Fragment
Length = 121
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 2 ARSISYISGS-QLLSLKRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEV 60
A +YISG + K R +A I D Y + G D+ + ++ + +
Sbjct: 24 ASGYTYISGWFRQAPGKEREGVAAIRSSDGTTYYADSVKGRFTISQDNAKNTVYLQMNSL 83
Query: 61 RGKDTLVFHCALSQVRG 77
+ +DT +++CA ++V G
Sbjct: 84 KPEDTAMYYCAATEVAG 100
>pdb|2HHG|A Chain A, Structure Of Protein Of Unknown Function Rpa3614, Possible
Tyrosine Phosphatase, From Rhodopseudomonas Palustris
Cga009
Length = 139
Score = 33.1 bits (74), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 53/127 (41%), Gaps = 28/127 (22%)
Query: 4 SISYISGSQLLSLKRR--PNIAVIDVRDD-ERSYDGHITGSLHY----------PSDSFT 50
SI ++ + ++L + ++ ++D+RD E DG I GS P +
Sbjct: 20 SIETLTTADAIALHKSGASDVVIVDIRDPREIERDGKIPGSFSCTRGXLEFWIDPQSPYA 79
Query: 51 DKIFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGINSIFVLERGFKGW 110
IF QE + VF+CA +R AK +D G+ + +E GF W
Sbjct: 80 KPIF---QEDK---KFVFYCA-GGLRSALAAK--------TAQDXGLKPVAHIEGGFGAW 124
Query: 111 EASGKPV 117
+G P+
Sbjct: 125 RDAGGPI 131
>pdb|1RJC|A Chain A, Crystal Structure Of The Camelid Single Domain Antibody
Cab-Lys2 In Complex With Hen Egg White Lysozyme
Length = 137
Score = 32.7 bits (73), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 28/55 (50%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
K R +AVID +Y + G L D+ + ++ + ++ +DT +++CA
Sbjct: 43 KEREGVAVIDTGRGNTAYADSVQGRLTISLDNAKNTLYLQMNSLKPEDTAMYYCA 97
>pdb|1QD0|A Chain A, Camelid Heavy Chain Variable Domains Provide Efficient
Combining Sites To Haptens
Length = 128
Score = 32.3 bits (72), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVR 76
K R +A I E Y + G D+ ++ + ++G+DT V++CA VR
Sbjct: 46 KEREFVAAIRWSGKETWYKDSVKGRFTISRDNAKTTVYLQMNSLKGEDTAVYYCAARPVR 105
>pdb|3OP3|A Chain A, Crystal Structure Of Cell Division Cycle 25c Protein
Isoform A From Homo Sapiens
Length = 216
Score = 32.0 bits (71), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 46/108 (42%), Gaps = 20/108 (18%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDT-----LVFHCALSQVRGP 78
VID R GHI G+L+ S F L + + DT +VFHC S RGP
Sbjct: 81 VIDCRYPYEYLGGHIQGALNLYSQEELFNFF-LKKPIVPLDTQKRIIIVFHCEFSSERGP 139
Query: 79 TCAKRLANYLDEVKEDTGINS--------IFVLERGFKGWEASGKPVC 118
R+ L E ED +N +++L+ G++ + +C
Sbjct: 140 ----RMCRCLRE--EDRSLNQYPALYYPELYILKGGYRDFFPEYMELC 181
>pdb|1UJ3|B Chain B, Crystal Structure Of A Humanized Fab Fragment Of Anti-
Tissue-Factor Antibody In Complex With Tissue Factor
Length = 217
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I D + YD G + +D+ T +F + +R +DT V++C
Sbjct: 37 VKQRPGQGLEWIGGNDPANGHSMYDPKFQGRVTITADTSTSTVFMELSSLRSEDTAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|3Q3G|D Chain D, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|B Chain B, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|H Chain H, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|K Chain K, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|D Chain D, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|B Chain B, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|H Chain H, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|K Chain K, Crystal Structure Of A-Domain In Complex With Antibody
Length = 224
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I ID +D+ YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGRIDPANDKTKYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|2IFD|A Chain A, Crystal Structure Of A Remote Binding Site Mutant, R492l,
Of Cdc25b Phosphatase Catalytic Domain
Length = 175
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 58/138 (42%), Gaps = 24/138 (17%)
Query: 3 RSISYISGSQLLSL--KRRPNIA----VIDVRDDERSYDGHITGSLHYP----SDSFTDK 52
+ + YIS +++L + NI ++D R GHI +++ P ++SF K
Sbjct: 21 QDLKYISPETMVALLTGKFSNIVDKFVIVDCRYPYEYEGGHIKTAVNLPLERDAESFLLK 80
Query: 53 IFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGIN--------SIFVLE 104
+ + L+FHC S RGP R+ ++ E D +N +++L+
Sbjct: 81 SPIAPCSLDKRVILIFHCEFSSERGP----RMCRFIRE--RDLAVNDYPSLYYPEMYILK 134
Query: 105 RGFKGWEASGKPVCRCTD 122
G+K + C D
Sbjct: 135 GGYKEFFPQHPNFCEPQD 152
>pdb|3F12|B Chain B, Germline V-Genes Sculpt The Binding Site Of A Family Of
Antibodies Neutralizing Human Cytomegalovirus
pdb|3F12|D Chain D, Germline V-Genes Sculpt The Binding Site Of A Family Of
Antibodies Neutralizing Human Cytomegalovirus
Length = 242
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCAL-SQVRGPTC 80
+AVI + Y + G D+ + ++ + +R +DT V++CA + G +C
Sbjct: 48 VAVISYDGSNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDGKCAGGSC 107
Query: 81 AKRLANYLDE 90
L +Y +
Sbjct: 108 YSGLLDYWGQ 117
>pdb|1YMK|A Chain A, Crystal Structure Of The Cdc25b Phosphatase Catalytic
Domain In The Apo Form
pdb|1YS0|A Chain A, Crystal Structure Of The Cdc25b Phosphatase Catalytic
Domain With The Active Site Cysteine In The Disulfide
Form
Length = 175
Score = 30.8 bits (68), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 58/138 (42%), Gaps = 24/138 (17%)
Query: 3 RSISYISGSQLLSL--KRRPNIA----VIDVRDDERSYDGHITGSLHYP----SDSFTDK 52
+ + YIS +++L + NI ++D R GHI +++ P ++SF K
Sbjct: 21 QDLKYISPETMVALLTGKFSNIVDKFVIVDCRYPYEYEGGHIKTAVNLPLERDAESFLLK 80
Query: 53 IFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGIN--------SIFVLE 104
+ + L+FHC S RGP R+ ++ E D +N +++L+
Sbjct: 81 SPIAPCSLDKRVILIFHCEFSSERGP----RMCRFIRE--RDRAVNDYPSLYYPEMYILK 134
Query: 105 RGFKGWEASGKPVCRCTD 122
G+K + C D
Sbjct: 135 GGYKEFFPQHPNFCEPQD 152
>pdb|3EYQ|D Chain D, Crystal Structure Of Mj5 Fab, A Germline Antibody Variant
Of Anti-Human Cytomegalovirus Antibody 8f9
Length = 242
Score = 30.8 bits (68), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCAL-SQVRGPTC 80
+AVI + Y + G D+ + ++ + +R +DT V++CA + G +C
Sbjct: 48 VAVISYDGSNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDGKCGGGSC 107
Query: 81 AKRLANYLDE 90
L +Y +
Sbjct: 108 YSGLLDYWGQ 117
>pdb|1CWT|A Chain A, Human Cdc25b Catalytic Domain With Methyl Mercury
Length = 178
Score = 30.4 bits (67), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 58/138 (42%), Gaps = 24/138 (17%)
Query: 3 RSISYISGSQLLSL--KRRPNIA----VIDVRDDERSYDGHITGSLHYP----SDSFTDK 52
+ + YIS +++L + NI ++D R GHI +++ P ++SF K
Sbjct: 23 QDLKYISPETMVALLTGKFSNIVDKFVIVDCRYPYEYEGGHIKTAVNLPLERDAESFLLK 82
Query: 53 IFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGIN--------SIFVLE 104
+ + L+FHC S RGP R+ ++ E D +N +++L+
Sbjct: 83 SPIAPCSLDKRVILIFHCEFSSERGP----RMCRFIRE--RDRAVNDYPSLYYPEMYILK 136
Query: 105 RGFKGWEASGKPVCRCTD 122
G+K + C D
Sbjct: 137 GGYKEFFPQHPNFCEPQD 154
>pdb|2UZQ|A Chain A, Protein Phosphatase, New Crystal Form
pdb|2UZQ|B Chain B, Protein Phosphatase, New Crystal Form
pdb|2UZQ|C Chain C, Protein Phosphatase, New Crystal Form
pdb|2UZQ|D Chain D, Protein Phosphatase, New Crystal Form
pdb|2UZQ|E Chain E, Protein Phosphatase, New Crystal Form
pdb|2UZQ|F Chain F, Protein Phosphatase, New Crystal Form
Length = 203
Score = 30.4 bits (67), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 58/138 (42%), Gaps = 24/138 (17%)
Query: 3 RSISYISGSQLLSL--KRRPNIA----VIDVRDDERSYDGHITGSLHYP----SDSFTDK 52
+ + YIS +++L + NI ++D R GHI +++ P ++SF K
Sbjct: 33 QDLKYISPETMVALLTGKFSNIVDKFVIVDCRYPYEYEGGHIKTAVNLPLERDAESFLLK 92
Query: 53 IFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGIN--------SIFVLE 104
+ + L+FHC S RGP R+ ++ E D +N +++L+
Sbjct: 93 SPIAPCSLDKRVILIFHCEFSSERGP----RMCRFIRE--RDRAVNDYPSLYYPEMYILK 146
Query: 105 RGFKGWEASGKPVCRCTD 122
G+K + C D
Sbjct: 147 GGYKEFFPQHPNFCEPQD 164
>pdb|2H9G|B Chain B, Crystal Structure Of Phage Derived Fab Bdf1 With Human
Death Receptor 5 (dr5)
pdb|2H9G|H Chain H, Crystal Structure Of Phage Derived Fab Bdf1 With Human
Death Receptor 5 (dr5)
Length = 228
Score = 30.4 bits (67), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA--LSQVR 76
+AVI D +Y + G +D+ + + + +R +DT V++CA L+ VR
Sbjct: 48 VAVIYPHDGNTAYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARRLALVR 104
>pdb|3IWH|A Chain A, Crystal Structure Of Rhodanese-Like Domain Protein From
Staphylococcus Aureus
pdb|3MZZ|A Chain A, Crystal Structure Of Rhodanese-Like Domain Protein From
Staphylococcus Aureus
Length = 103
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 15/99 (15%)
Query: 16 LKRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQV 75
L+ +P + ++DVR DE + G+I + P D+ D + K+ + + V
Sbjct: 14 LESKP-VQIVDVRTDEETAXGYIPNAKLIPXDTIPDNLNSF-----NKNEIYYIVCAGGV 67
Query: 76 RGPTCAKRLANYLDEVKEDTGINSIFVLERGFKGWEASG 114
R + ++ YL E GI+++ V E G W G
Sbjct: 68 R----SAKVVEYL----EANGIDAVNV-EGGXHAWGDEG 97
>pdb|3JWD|H Chain H, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWD|P Chain P, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWO|H Chain H, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 220
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+ +ID D + Y G + +D+ TD + + +R +DT V++CA
Sbjct: 48 MGLIDPEDADTMYAEKFRGRVTITADTSTDTGYLELSSLRSEDTAVYYCA 97
>pdb|1RZ7|H Chain H, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 48d
pdb|4DVR|H Chain H, Crystal Structure Of Yu2 Gp120 Core In Complex With Fab
48d And Nbd- 557
Length = 219
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+ +ID D + Y G + +D+ TD + + +R +DT V++CA
Sbjct: 48 MGLIDPEDADTMYAEKFRGRVTITADTSTDTGYLELSSLRSEDTAVYYCA 97
>pdb|1LNL|A Chain A, Structure Of Deoxygenated Hemocyanin From Rapana
Thomasiana
pdb|1LNL|B Chain B, Structure Of Deoxygenated Hemocyanin From Rapana
Thomasiana
pdb|1LNL|C Chain C, Structure Of Deoxygenated Hemocyanin From Rapana
Thomasiana
Length = 408
Score = 30.0 bits (66), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 25/50 (50%), Gaps = 11/50 (22%)
Query: 40 GSLHYPS--------DSFTDKIFDLIQEV---RGKDTLVFHCALSQVRGP 78
G LHY S S TD++F L QE+ RG D +CAL +R P
Sbjct: 200 GHLHYASYDPVFILHHSNTDRLFALWQELQKFRGHDPNEVNCALEMMREP 249
>pdb|2R0K|H Chain H, Protease Domain Of Hgfa With Inhibitor Fab58
Length = 225
Score = 30.0 bits (66), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
I+GS + +++ P +A+I+ Y + G +D+ + + + +R
Sbjct: 29 ITGSAIHWVRQAPGKGLEWVAIINPNGGYTYYADSVKGRFTISADTSKNTAYLQMNSLRA 88
Query: 63 KDTLVFHCALS 73
+DT V++CA S
Sbjct: 89 EDTAVYYCARS 99
>pdb|1HEZ|B Chain B, Antibody-Antigen Complex
pdb|1HEZ|D Chain D, Antibody-Antigen Complex
Length = 224
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 28/59 (47%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTC 80
+A+I + + Y + G D+ + ++ + +R +DT V++CA + PT
Sbjct: 48 VALISYDESNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKVKFYDPTA 106
>pdb|1QB0|A Chain A, Human Cdc25b Catalytic Domain
pdb|1CWS|A Chain A, Human Cdc25b Catalytic Domain With Tungstate
pdb|1CWR|A Chain A, Human Cdc25b Catalytic Domain Without Ion In Catalytic
Site
Length = 211
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 58/138 (42%), Gaps = 24/138 (17%)
Query: 3 RSISYISGSQLLSL--KRRPNIA----VIDVRDDERSYDGHITGSLHYP----SDSFTDK 52
+ + YIS +++L + NI ++D R GHI +++ P ++SF K
Sbjct: 41 QDLKYISPETMVALLTGKFSNIVDKFVIVDCRYPYEYEGGHIKTAVNLPLERDAESFLLK 100
Query: 53 IFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYLDEVKEDTGIN--------SIFVLE 104
+ + L+FHC S RGP R+ ++ E D +N +++L+
Sbjct: 101 SPIAPCSLDKRVILIFHCEFSSERGP----RMCRFIRE--RDRAVNDYPSLYYPEMYILK 154
Query: 105 RGFKGWEASGKPVCRCTD 122
G+K + C D
Sbjct: 155 GGYKEFFPQHPNFCEPQD 172
>pdb|1AHW|B Chain B, A Complex Of Extracellular Domain Of Tissue Factor With
An Inhibitory Fab (5g9)
pdb|1AHW|E Chain E, A Complex Of Extracellular Domain Of Tissue Factor With
An Inhibitory Fab (5g9)
pdb|1FGN|H Chain H, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I +ID + YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGLIDPENGNTIYDPKFQGKASITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|1DEE|B Chain B, Crystal Structure At 2.7a Resolution Of A Complex Between
A Staphylococcus Aureus Domain And A Fab Fragment Of A
Human Igm Antibody
pdb|1DEE|D Chain D, Crystal Structure At 2.7a Resolution Of A Complex Between
A Staphylococcus Aureus Domain And A Fab Fragment Of A
Human Igm Antibody
pdb|1DEE|F Chain F, Crystal Structure At 2.7a Resolution Of A Complex Between
A Staphylococcus Aureus Domain And A Fab Fragment Of A
Human Igm Antibody
Length = 223
Score = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 28/59 (47%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTC 80
+A+I + + Y + G D+ + ++ + +R +DT V++CA + PT
Sbjct: 48 VALISYDESNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKVKFYDPTA 106
>pdb|1NL0|H Chain H, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
pdb|3D69|H Chain H, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
pdb|3D69|B Chain B, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
Length = 224
Score = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTCA 81
+A+I ++ Y + G D+ + ++ + +R +DT V++CA R A
Sbjct: 48 VAIISYDGSKKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCA----RASIAA 103
Query: 82 KRLANY 87
R+ +Y
Sbjct: 104 ARVLDY 109
>pdb|1XFP|A Chain A, Crystal Structure Of The Cdr2 Germline Reversion Mutant
Of Cab-lys3 In Complex With Hen Egg White Lysozyme
Length = 142
Score = 29.6 bits (65), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 25/55 (45%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
K R +A I+ Y + G D+ + ++ L+ + +DT +++CA
Sbjct: 43 KEREGVAAINSGGGSTYYADSVKGRFTISQDNAKNTVYLLMNSLEPEDTAIYYCA 97
>pdb|3EBA|A Chain A, Cabhul6 Fglw Mutant (Humanized) In Complex With Human
Lysozyme
Length = 127
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 36/81 (44%), Gaps = 9/81 (11%)
Query: 2 ARSISYISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDL 56
A +YISG ++ P +A I D Y + G D+ + ++
Sbjct: 24 ASGYTYISGW----FRQAPGKGLEWVAAIRSSDGTTYYADSVKGRFTISQDNAKNTVYLQ 79
Query: 57 IQEVRGKDTLVFHCALSQVRG 77
+ ++ +DT +++CA ++V G
Sbjct: 80 MNSLKPEDTAMYYCAATEVAG 100
>pdb|3EYS|H Chain H, Pfa1 Fab Fragment Complexed With Pyro-Glu3-A-Beta (3-8)
Length = 223
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD+RSY+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDRSYNPSLKSQLTISKDAARNQVFLRITSVDTADTATYYC 97
>pdb|1JTT|A Chain A, Degenerate Interfaces In Antigen-Antibody Complexes
Length = 133
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 26/55 (47%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
K R +A I++ Y + G D+ + ++ L+ + +DT +++CA
Sbjct: 43 KEREGVAAINMGGGITYYADSVKGRFTISQDNAKNTVYLLMNSLEPEDTAIYYCA 97
>pdb|2IPU|H Chain H, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IPU|G Chain G, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
Length = 226
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD+RSY+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDRSYNPSLKSQLTISKDAARNQVFLRITSVDTADTATYYC 97
>pdb|4G5Z|H Chain H, Crystal Structure Of The Therapeutical Antibody Fragment
Of Canakinumab In Its Unbound State
pdb|4G6J|H Chain H, Crystal Structure Of Human Il-1beta In Complex With The
Therapeutic Antibody Binding Fragment Of Canakinumab
Length = 218
Score = 29.3 bits (64), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 27/57 (47%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGP 78
+A+I D + Y + G D+ + ++ + +R +DT V++CA GP
Sbjct: 48 VAIIWYDGDNQYYADSVKGRFTISRDNSKNTLYLQMNGLRAEDTAVYYCARDLRTGP 104
>pdb|3EYU|H Chain H, Pfa1 Fab Fragment Complexed With Ror2(518-525)
Length = 226
Score = 29.3 bits (64), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD+RSY+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDRSYNPSLKSQLTISKDAARNQVFLRITSVDTADTATYYC 97
>pdb|3PP3|H Chain H, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type
I TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP3|I Chain I, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type
I TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP4|H Chain H, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type
I TYPE II Distinction Of Anti- Cd20 Antibodies
Length = 224
Score = 29.3 bits (64), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
D + Y+G G + +D T + + +R +DT V++CA
Sbjct: 55 DGDTDYNGKFKGRVTITADKSTSTAYMELSSLRSEDTAVYYCA 97
>pdb|1ETZ|H Chain H, The Three-Dimensional Structure Of An Anti-Sweetener
Fab, Nc10.14, Shows The Extent Of Structural Diversity
In Antigen Recognition By Immunoglobulins
pdb|1ETZ|B Chain B, The Three-Dimensional Structure Of An Anti-Sweetener
Fab, Nc10.14, Shows The Extent Of Structural Diversity
In Antigen Recognition By Immunoglobulins
Length = 228
Score = 29.3 bits (64), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+D++ Y+ + L D+ ++++F I V DT +HCA
Sbjct: 56 NDKKYYNPSLKSRLTVSKDTSSNQVFLKITSVDTSDTATYHCA 98
>pdb|2R0Z|H Chain H, Pfa1 Fab Complexed With Gripi Peptide Fragment
Length = 223
Score = 29.3 bits (64), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD+RSY+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDRSYNPSLKSQLTISKDTSRNQVFLRITSVDTADTATYYC 97
>pdb|3ZTJ|G Chain G, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|I Chain I, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|K Chain K, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTN|H Chain H, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H1 Influenza Haemagglutinin
Length = 226
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCAL-SQVR 76
+AVI + + Y + G D+ + ++ + +R +DT V++CA SQ+R
Sbjct: 48 VAVISYDANYKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDSQLR 103
>pdb|1JTP|A Chain A, Degenerate Interfaces In Antigen-Antibody Complexes
pdb|1JTP|B Chain B, Degenerate Interfaces In Antigen-Antibody Complexes
Length = 148
Score = 28.9 bits (63), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 26/55 (47%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
K R +A I++ Y + G D+ + ++ L+ + +DT +++CA
Sbjct: 43 KEREGVAAINMGGGITYYADSVKGRFTISQDNAKNTVYLLMNSLEPEDTAIYYCA 97
>pdb|1MEL|A Chain A, Crystal Structure Of A Camel Single-Domain Vh Antibody
Fragment In Complex With Lysozyme
pdb|1MEL|B Chain B, Crystal Structure Of A Camel Single-Domain Vh Antibody
Fragment In Complex With Lysozyme
pdb|1JTO|A Chain A, Degenerate Interfaces In Antigen-Antibody Complexes
pdb|1JTO|B Chain B, Degenerate Interfaces In Antigen-Antibody Complexes
Length = 148
Score = 28.9 bits (63), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 26/55 (47%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
K R +A I++ Y + G D+ + ++ L+ + +DT +++CA
Sbjct: 43 KEREGVAAINMGGGITYYADSVKGRFTISQDNAKNTVYLLMNSLEPEDTAIYYCA 97
>pdb|2RCS|H Chain H, Immunoglobulin 48g7 Germline Fab-Affinity Maturation Of
An Esterolytic Antibody
pdb|1AJ7|H Chain H, Immunoglobulin 48g7 Germline Fab Antibody Complexed With
Hapten 5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid.
Affinity Maturation Of An Esterolytic Antibody
Length = 217
Score = 28.9 bits (63), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I ID + YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGRIDPANGNTKYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|2GHW|B Chain B, Crystal Structure Of Sars Spike Protein Receptor Binding
Domain In Complex With A Neutralizing Antibody, 80r
pdb|2GHW|D Chain D, Crystal Structure Of Sars Spike Protein Receptor Binding
Domain In Complex With A Neutralizing Antibody, 80r
Length = 247
Score = 28.9 bits (63), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+AVI + Y + G D+ + ++ + +R +DT V++CA
Sbjct: 50 VAVISYDGSNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCA 99
>pdb|1MVF|A Chain A, Maze Addiction Antidote
pdb|1MVF|B Chain B, Maze Addiction Antidote
Length = 135
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/57 (21%), Positives = 27/57 (47%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALS 73
K R +A I + + Y + G D+ + ++ + ++ +DT +++CA S
Sbjct: 43 KEREGVAAIFIDNGNTIYADSVQGRFTISQDNAKNTVYLQMNSLKPEDTAMYYCAAS 99
>pdb|3IYW|H Chain H, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3IYW|K Chain K, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3N9G|H Chain H, Crystal Structure Of The Fab Fragment Of The Human
Neutralizing Anti- West Nile Virus Mab Cr4354
Length = 230
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/50 (22%), Positives = 25/50 (50%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+ +I+ +Y + G + D+ T ++ + +R +DT V++CA
Sbjct: 48 MGIINPSGGSTTYAQKLQGRVTMTRDTSTSTVYMELSSLRSEDTAVYYCA 97
>pdb|1C25|A Chain A, Human Cdc25a Catalytic Domain
Length = 161
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 40/103 (38%), Gaps = 5/103 (4%)
Query: 21 NIAVIDVRDDERSYDGHITGS--LHYPSDSFTDKIFDLIQEVRGKDTLV-FHCALSQVRG 77
+ID R GHI G+ LH + + I GK +V FHC S RG
Sbjct: 44 EFVIIDCRYPYEYEGGHIKGAVNLHMEEEVEDFLLKKPIVPTDGKRVIVVFHCEFSSERG 103
Query: 78 PTCAK--RLANYLDEVKEDTGINSIFVLERGFKGWEASGKPVC 118
P + R + L ++VL+ G+K + + C
Sbjct: 104 PRMCRYVRERDRLGNEYPKLHYPELYVLKGGYKEFFMKCQSYC 146
>pdb|1IT9|H Chain H, Crystal Structure Of An Antigen-Binding Fragment From A
Humanized Version Of The Anti-Human Fas Antibody Hfe7a
Length = 219
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 25 IDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
ID D +Y+ G D+ T + + +R +DT V++CA
Sbjct: 51 IDPSDSYTNYNQKFKGKATLTVDTSTSTAYMELSSLRSEDTAVYYCA 97
>pdb|2A9N|H Chain H, A Mutation Designed To Alter Crystal Packing Permits
Structural Analysis Of A Tight-Binding Fluorescein-Scfv
Complex
pdb|2A9N|I Chain I, A Mutation Designed To Alter Crystal Packing Permits
Structural Analysis Of A Tight-Binding Fluorescein-Scfv
Complex
Length = 126
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/74 (20%), Positives = 30/74 (40%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTCA 81
+A + R Y + G D+ + ++ + +R +DT V++CA A
Sbjct: 48 VAGLSARSSLTHYADSVKGRFTISRDNAKNSVYLQMNSLRVEDTAVYYCARRSYDSSGYA 107
Query: 82 KRLANYLDEVKEDT 95
+Y+D + T
Sbjct: 108 GHFYSYMDVWGQGT 121
>pdb|1DZB|A Chain A, Crystal Structure Of Phage Library-Derived Single-Chain
Fv Fragment 1f9 In Complex With Turkey Egg-White
Lysozyme
pdb|1DZB|B Chain B, Crystal Structure Of Phage Library-Derived Single-Chain
Fv Fragment 1f9 In Complex With Turkey Egg-White
Lysozyme
Length = 253
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I ID + YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGRIDPANGNTKYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|3NTD|A Chain A, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase C531s Mutant
pdb|3NTD|B Chain B, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase C531s Mutant
Length = 565
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 36/65 (55%), Gaps = 9/65 (13%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQV--RGPTCA 81
++DVR+ +G + G+++ P D D++ +L ++ K+ ++F SQV RG
Sbjct: 489 LLDVRNPGELQNGGLEGAVNIPVDELRDRMHELPKD---KEIIIF----SQVGLRGNVAY 541
Query: 82 KRLAN 86
++L N
Sbjct: 542 RQLVN 546
>pdb|2IPT|H Chain H, Pfa1 Fab Fragment
Length = 223
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD++SY+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDKSYNPSLKSQLTISKDAARNQVFLRITSVDTADTATYYC 97
>pdb|1FGV|H Chain H, X-Ray Structures Of Fragments From Binding And
Nonbinding Versions Of A Humanized Anti-Cd18 Antibody:
Structural Indications Of The Key Role Of Vh Residues
59 To 65
Length = 124
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 25/50 (50%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+A I+ ++ SY + G D + ++ + +R +DT V++CA
Sbjct: 48 VAGINPKNGGTSYADSVKGRFTISVDKSKNTLYLQMNSLRAEDTAVYYCA 97
>pdb|1IQD|B Chain B, Human Factor Viii C2 Domain Complexed To Human
Monoclonal Bo2c11 Fab
Length = 215
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCAL 72
+ D E Y GS+ +D+ T+ + + +R DT V++CA+
Sbjct: 48 VGSFDPESGESIYAREFQGSVTMTADTSTNIAYMELSSLRSDDTAVYYCAV 98
>pdb|3ICR|A Chain A, Crystal Structure Of Oxidized Bacillus Anthracis Coadr-Rhd
pdb|3ICR|B Chain B, Crystal Structure Of Oxidized Bacillus Anthracis Coadr-Rhd
pdb|3ICS|A Chain A, Crystal Structure Of Partially Reduced Bacillus Anthracis
Coadr-Rhd
pdb|3ICS|B Chain B, Crystal Structure Of Partially Reduced Bacillus Anthracis
Coadr-Rhd
pdb|3ICT|A Chain A, Crystal Structure Of Reduced Bacillus Anthracis Coadr-Rhd
pdb|3ICT|B Chain B, Crystal Structure Of Reduced Bacillus Anthracis Coadr-Rhd
Length = 588
Score = 28.1 bits (61), Expect = 1.7, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 32/73 (43%), Gaps = 5/73 (6%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTCAKR 83
+IDVR+ G I GS++ P D D+ ++EV + C L RG A+
Sbjct: 506 LIDVREPNELKQGXIKGSINIPLDELRDR----LEEVPVDKDIYITCQLGX-RGYVAARX 560
Query: 84 LANYLDEVKEDTG 96
L +VK G
Sbjct: 561 LXEKGYKVKNVDG 573
>pdb|3CFI|C Chain C, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
pdb|3CFI|F Chain F, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
pdb|3CFI|I Chain I, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
pdb|3CFI|L Chain L, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
Length = 116
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 28 RDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
RD SY + G D+ + ++ + +R +DT V++CA
Sbjct: 53 RDGSTSYTAPVKGRFTISRDNAKNILYLQMNSLRPEDTAVYYCA 96
>pdb|4EOW|H Chain H, Crystal Structure Of A Disease-Associated Anti-Human
Gm-Csf Autoantibody Mb007
Length = 228
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVR 76
+ I+ R +Y TG + D+ D F I ++ +DT +++CA R
Sbjct: 48 MGWINTRSGVPAYAQGFTGRFVFSLDTSVDTAFLEISSLKTEDTGIYYCATRPPR 102
>pdb|3BKJ|H Chain H, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-16)
pdb|3BKM|H Chain H, Structure Of Anti-Amyloid-Beta Fab Wo2 (Form A, P212121)
Length = 224
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTCAKRLANYL 88
DD++ Y+ + L D+ D +F I V DT ++CA RG K N+
Sbjct: 55 DDDKRYNPSLESRLTISKDTSRDMVFMKITSVDTADTATYYCAR---RGFYGRKYEVNHF 111
Query: 89 DEVKEDTGIN 98
D + T +
Sbjct: 112 DYWGQGTTLT 121
>pdb|3OGO|E Chain E, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|F Chain F, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|G Chain G, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|H Chain H, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
Length = 123
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/57 (21%), Positives = 27/57 (47%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALS 73
K R +A + D SY+ + G D + ++ + ++ +DT V++C ++
Sbjct: 44 KEREWVAGMSSAGDRSSYEDSVKGRFTISRDDARNTVYLQMNSLKPEDTAVYYCNVN 100
>pdb|3K1K|C Chain C, Green Fluorescent Protein Bound To Minimizer Nanobody
pdb|3K1K|D Chain D, Green Fluorescent Protein Bound To Minimizer Nanobody
Length = 123
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/57 (21%), Positives = 27/57 (47%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALS 73
K R +A + D SY+ + G D + ++ + ++ +DT V++C ++
Sbjct: 45 KEREWVAGMSSAGDRSSYEDSVKGRFTISRDDARNTVYLQMNSLKPEDTAVYYCNVN 101
>pdb|3EO0|B Chain B, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
pdb|3EO0|D Chain D, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
Length = 225
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
I ++D+ + + + G +T + +D T + + +R +DT V++CA
Sbjct: 52 IPIVDIANYAQRFKGRVTIT----ADESTSTTYMELSSLRSEDTAVYYCA 97
>pdb|3EO1|B Chain B, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|E Chain E, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|H Chain H, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|K Chain K, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
Length = 225
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
I ++D+ + + + G +T +D T + + +R +DT V++CA
Sbjct: 52 IPIVDIANYAQRFKGRVT----ITADESTSTTYMELSSLRSEDTAVYYCA 97
>pdb|3O3W|A Chain A, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|B Chain B, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|C Chain C, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|D Chain D, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|E Chain E, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|F Chain F, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|G Chain G, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|H Chain H, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
pdb|3O3W|I Chain I, Crystal Structure Of Bh2092 Protein (Residues 14-131) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr228a
Length = 126
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 4/88 (4%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPT-C 80
I V+DVRD E + HI ++ P + + D + + + ++ +C G T
Sbjct: 36 IIVVDVRDAEAYKECHIPTAISIPGNKINE---DTTKRLSKEKVIITYCWGPACNGATKA 92
Query: 81 AKRLANYLDEVKEDTGINSIFVLERGFK 108
A + A VKE G + E G +
Sbjct: 93 AAKFAQLGFRVKELIGGIEYWRKENGLE 120
>pdb|3BAE|H Chain H, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-28)
pdb|3BKC|H Chain H, Crystal Structure Of Anti-Amyloid Beta Fab Wo2 (P21,
Formb)
Length = 228
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
DD++ Y+ + L D+ D +F I V DT ++CA
Sbjct: 56 DDDKRYNPSLESRLTISKDTSRDMVFMKITSVDTADTATYYCA 98
>pdb|2HFF|B Chain B, Crystal Structure Of Cb2 Fab
pdb|2HFF|H Chain H, Crystal Structure Of Cb2 Fab
Length = 232
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 23/50 (46%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+A I D Y + G +D+ + + + +R +DT V++CA
Sbjct: 48 VAWITPSDGNTDYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCA 97
>pdb|3IVK|H Chain H, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
pdb|3IVK|A Chain A, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
Length = 224
Score = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 5/75 (6%)
Query: 7 YISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVR 61
YIS S + +++ P +A I Y + G +D+ + + + +R
Sbjct: 29 YISYSSIHWVRQAPGKGLEWVASISPYSGSTYYADSVKGRFTISADTSKNTAYLQMNSLR 88
Query: 62 GKDTLVFHCALSQVR 76
+DT V++CA R
Sbjct: 89 AEDTAVYYCARQGYR 103
>pdb|1N5Y|H Chain H, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|H Chain H, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|H Chain H, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1R0A|H Chain H, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|3KLH|D Chain D, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 225
Score = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQV 75
DD+ Y+ + L D+ ++ F + V DT +++CA S +
Sbjct: 56 DDDNRYNPSLKSRLTVSKDTSNNQAFLNMMTVETADTAIYYCAQSAI 102
>pdb|3OAU|H Chain H, Antibody 2g12 Recognizes Di-Mannose Equivalently In
Domain- And Non- Domain-Exchanged Forms, But Only Binds
The Hiv-1 Glycan Shield If Domain-Exchanged
Length = 225
Score = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
IS + ++R P +A I R Y + G D D ++ + ++R
Sbjct: 29 ISAHTMNWVRRVPGGGLEWVASISTSSTYRDYADAVKGRFTVSRDDLEDFVYLQMHKMRV 88
Query: 63 KDTLVFHCA 71
+DT +++CA
Sbjct: 89 EDTAIYYCA 97
>pdb|1ZLS|H Chain H, Fab 2g12 + Man4
pdb|1ZLU|H Chain H, Fab 2g12 + Man5
pdb|1ZLU|M Chain M, Fab 2g12 + Man5
pdb|1ZLV|H Chain H, Fab 2g12 + Man7
pdb|1ZLV|M Chain M, Fab 2g12 + Man7
pdb|1ZLW|H Chain H, Fab 2g12 + Man8
pdb|1ZLW|M Chain M, Fab 2g12 + Man8
pdb|2OQJ|B Chain B, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|E Chain E, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|H Chain H, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|K Chain K, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|3OAY|M Chain M, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAY|H Chain H, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OB0|H Chain H, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OB0|M Chain M, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
Length = 224
Score = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
IS + ++R P +A I R Y + G D D ++ + ++R
Sbjct: 29 ISAHTMNWVRRVPGGGLEWVASISTSSTYRDYADAVKGRFTVSRDDLEDFVYLQMHKMRV 88
Query: 63 KDTLVFHCA 71
+DT +++CA
Sbjct: 89 EDTAIYYCA 97
>pdb|3R2U|A Chain A, 2.1 Angstrom Resolution Crystal Structure Of
Metallo-Beta-Lactamase From Staphylococcus Aureus Subsp.
Aureus Col
pdb|3R2U|B Chain B, 2.1 Angstrom Resolution Crystal Structure Of
Metallo-Beta-Lactamase From Staphylococcus Aureus Subsp.
Aureus Col
pdb|3R2U|C Chain C, 2.1 Angstrom Resolution Crystal Structure Of
Metallo-Beta-Lactamase From Staphylococcus Aureus Subsp.
Aureus Col
pdb|3R2U|D Chain D, 2.1 Angstrom Resolution Crystal Structure Of
Metallo-Beta-Lactamase From Staphylococcus Aureus Subsp.
Aureus Col
Length = 466
Score = 27.7 bits (60), Expect = 2.2, Method: Composition-based stats.
Identities = 21/90 (23%), Positives = 38/90 (42%), Gaps = 13/90 (14%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTCAKR 83
++DVR+D +GH++ ++H P K+ + D + HC S +R
Sbjct: 390 ILDVRNDNEWNNGHLSQAVHVPH----GKLLETDLPFNKNDVIYVHCQ-SGIRSSIAIGI 444
Query: 84 LANYLDEVKEDTGINSIFVLERGFKGWEAS 113
L E G ++I + G+K + S
Sbjct: 445 L--------EHKGYHNIINVNEGYKDIQLS 466
>pdb|3OAZ|H Chain H, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAZ|M Chain M, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
Length = 223
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
IS + ++R P +A I R Y + G D D ++ + ++R
Sbjct: 29 ISAHTMNWVRRVPGGGLEWVASISTSSTYRDYADAVKGRFTVSRDDLEDFVYLQMHKMRV 88
Query: 63 KDTLVFHCA 71
+DT +++CA
Sbjct: 89 EDTAIYYCA 97
>pdb|1OM3|H Chain H, Fab 2g12 Unliganded
pdb|1OM3|K Chain K, Fab 2g12 Unliganded
pdb|1OP3|H Chain H, Crystal Structure Of Fab 2g12 Bound To Man1->2man
pdb|1OP3|M Chain M, Crystal Structure Of Fab 2g12 Bound To Man1->2man
pdb|1OP5|H Chain H, Crystal Structure Of Fab 2g12 Bound To Man9glcnac2
pdb|1OP5|M Chain M, Crystal Structure Of Fab 2g12 Bound To Man9glcnac2
Length = 225
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
IS + ++R P +A I R Y + G D D ++ + ++R
Sbjct: 29 ISAHTMNWVRRVPGGGLEWVASISTSSTYRDYADAVKGRFTVSRDDLEDFVYLQMHKMRV 88
Query: 63 KDTLVFHCA 71
+DT +++CA
Sbjct: 89 EDTAIYYCA 97
>pdb|15C8|H Chain H, Catalytic Antibody 5c8, Free Fab
pdb|25C8|H Chain H, Catalytic Antibody 5c8, Fab-Hapten Complex
pdb|35C8|H Chain H, Catalytic Antibody 5c8, Fab-Inhibitor Complex
Length = 217
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K++P IA ID + YD G +D+ ++ + + + +D+ V++C
Sbjct: 37 VKQKPEQGLEWIAQIDPANGNTKYDPKFQGKATITADTSSNTAYLHLSSLTSEDSAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|2HMI|D Chain D, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
pdb|1HYS|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
pdb|1J5O|H Chain H, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 220
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQV 75
DD+ Y+ + L D+ ++ F + V DT +++CA S +
Sbjct: 56 DDDNRYNPSLKSRLTVSKDTSNNQAFLNMMTVETADTAIYYCAQSAI 102
>pdb|2HH0|H Chain H, Structure Of An Anti-Prp Fab, P-Clone, In Complex With
Its Cognate Bovine Peptide Epitope
Length = 217
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 5/69 (7%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
I S + +K+RP I ID D E Y G +D+ ++ + ++ +
Sbjct: 29 IEDSYIHWVKQRPEQGLEWIGRIDPEDGETKYAPKFQGKATITADTSSNTAYLHLRRLTS 88
Query: 63 KDTLVFHCA 71
+DT +++C
Sbjct: 89 EDTAIYYCG 97
>pdb|1JRH|H Chain H, Complex (AntibodyANTIGEN)
Length = 219
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
DD++ Y+ + L D+ +++F I V DT ++CA
Sbjct: 56 DDDKYYNPSLKSRLTISKDTSRNQVFLKITSVATADTATYYCA 98
>pdb|4GXU|M Chain M, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|O Chain O, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|Q Chain Q, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|S Chain S, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|U Chain U, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|W Chain W, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXV|H Chain H, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
pdb|4GXV|I Chain I, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
Length = 231
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
+AVI + Y + G D+ + ++ + +R +DT V++CA
Sbjct: 48 VAVISYDGRNKYYADSVKGRFTVSRDNSKNTLYLQMNSLRAEDTSVYYCA 97
>pdb|3NT6|A Chain A, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase C43sC531S DOUBLE MUTANT
pdb|3NT6|B Chain B, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase C43sC531S DOUBLE MUTANT
Length = 574
Score = 27.3 bits (59), Expect = 3.0, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQV--RGPTCA 81
++DVR+ +G + G+++ P D D+ +L ++ K+ ++F SQV RG
Sbjct: 489 LLDVRNPGELQNGGLEGAVNIPVDELRDRXHELPKD---KEIIIF----SQVGLRGNVAY 541
Query: 82 KRLAN 86
++L N
Sbjct: 542 RQLVN 546
>pdb|4D9L|H Chain H, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|I Chain I, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|J Chain J, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|K Chain K, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
Length = 223
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQV 75
I + + + + + G +T ++ D T+ + + +R +DT V++CA S V
Sbjct: 52 IPIFGIVNPAQKFPGRVTINV----DKSTNTAYMELSSLRSEDTAVYYCATSGV 101
>pdb|3IFL|H Chain H, X-Ray Structure Of Amyloid Beta Peptide:antibody
(Abeta1- 7:12a11) Complex
pdb|3IFN|H Chain H, X-Ray Structure Of Amyloid Beta Peptide:antibody
(Abeta1- 40:12a11) Complex
Length = 222
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
DD++ Y+ + L D+ +++F I V DT ++CA
Sbjct: 56 DDDKYYNPSLKSRLTISKDTSRNQVFLKITSVDTADTATYYCA 98
>pdb|1JNL|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 216
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/72 (20%), Positives = 33/72 (45%), Gaps = 5/72 (6%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
I + + +K+RP I I+ + YD G +D+ ++ + + +
Sbjct: 29 IKDTYMFWVKQRPEQGLDWIGRINPANGISKYDPRFQGKATLTADTSSNTAYLQLDNLTS 88
Query: 63 KDTLVFHCALSQ 74
+DT V++CA+ +
Sbjct: 89 EDTAVYYCAIEK 100
>pdb|3NTA|A Chain A, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase
pdb|3NTA|B Chain B, Structure Of The Shewanella Loihica Pv-4 Nadh-Dependent
Persulfide Reductase
Length = 574
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 16/63 (25%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRGPTCAKR 83
++DVR+ +G + G+++ P D D+ +L ++ K+ ++F C + +RG ++
Sbjct: 489 LLDVRNPGELQNGGLEGAVNIPVDELRDRXHELPKD---KEIIIF-CQVG-LRGNVAYRQ 543
Query: 84 LAN 86
L N
Sbjct: 544 LVN 546
>pdb|1YT8|A Chain A, Crystal Structure Of Thiosulfate Sulfurtransferase From
Pseudomonas Aeruginosa
Length = 539
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 8/48 (16%)
Query: 77 GPTCAKRLANYLDEVKEDTGINSIFVLERGFKGWEASGKPVCRCTDVP 124
P A+RL D G + + +L+ G GW +G + R +VP
Sbjct: 76 APVAAQRL--------HDLGYSDVALLDGGLSGWRNAGGELFRDVNVP 115
>pdb|3NHV|A Chain A, Crystal Structure Of Bh2092 Protein From Bacillus
Halodurans, Northeast Structural Genomics Consortium
Target Bhr228f
pdb|3NHV|B Chain B, Crystal Structure Of Bh2092 Protein From Bacillus
Halodurans, Northeast Structural Genomics Consortium
Target Bhr228f
pdb|3NHV|C Chain C, Crystal Structure Of Bh2092 Protein From Bacillus
Halodurans, Northeast Structural Genomics Consortium
Target Bhr228f
pdb|3NHV|D Chain D, Crystal Structure Of Bh2092 Protein From Bacillus
Halodurans, Northeast Structural Genomics Consortium
Target Bhr228f
pdb|3NHV|E Chain E, Crystal Structure Of Bh2092 Protein From Bacillus
Halodurans, Northeast Structural Genomics Consortium
Target Bhr228f
Length = 144
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 42/98 (42%), Gaps = 7/98 (7%)
Query: 3 RSISYISGSQLLSL---KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQE 59
+ +SY + LS+ K I V+DVRD E + HI ++ P + + D +
Sbjct: 12 KKLSYETDIADLSIDIKKGYEGIIVVDVRDAEAYKECHIPTAISIPGNKINE---DTTKR 68
Query: 60 VRGKDTLVFHCALSQVRGPT-CAKRLANYLDEVKEDTG 96
+ + ++ +C G T A + A VKE G
Sbjct: 69 LSKEKVIITYCWGPACNGATKAAAKFAQLGFRVKELIG 106
>pdb|3O41|H Chain H, Crystal Structure Of 101f Fab Bound To 15-Mer Peptide
Epitope
pdb|3O41|A Chain A, Crystal Structure Of 101f Fab Bound To 15-Mer Peptide
Epitope
pdb|3O45|H Chain H, Crystal Structure Of 101f Fab Bound To 17-Mer Peptide
Epitope
pdb|3O45|A Chain A, Crystal Structure Of 101f Fab Bound To 17-Mer Peptide
Epitope
Length = 220
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
DD++ Y+ + L D+ +++F I V DT ++CA
Sbjct: 56 DDDKRYNPSLKSRLTISKDTSRNQVFLKITSVDTADTATYYCA 98
>pdb|1JNN|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 214
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/72 (20%), Positives = 33/72 (45%), Gaps = 5/72 (6%)
Query: 8 ISGSQLLSLKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRG 62
I + + +K+RP I I+ + YD G +D+ ++ + + +
Sbjct: 29 IKDTYMFWVKQRPEQGLDWIGRINPANGISKYDPRFQGKATLTADTSSNTAYLQLDNLTS 88
Query: 63 KDTLVFHCALSQ 74
+DT V++CA+ +
Sbjct: 89 EDTAVYYCAIEK 100
>pdb|1DVF|D Chain D, Idiotopic Antibody D1.3 Fv Fragment-Antiidiotopic
Antibody E5.2 Fv Fragment Complex
Length = 121
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 16 LKRRPN-----IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
+K+RP I ID + YD G +D+ ++ + + + +DT V++C
Sbjct: 37 VKQRPEQGLEWIGRIDPANGNIQYDPKFRGKATITADTSSNTAYLQLSSLTSEDTAVYYC 96
Query: 71 A 71
A
Sbjct: 97 A 97
>pdb|4HF5|H Chain H, Crystal Structure Of Fab 8f8 In Complex A H2n2 Influenza
Virus Hemagglutinin
Length = 233
Score = 26.9 bits (58), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRG 77
+AVI + + + G L D+ + ++ + +R +DT V++CA Q G
Sbjct: 48 VAVIWYDGSKTYFADSMRGRLTVSRDNSKNALYLQMNRLRAEDTAVYYCARQQDSG 103
>pdb|2R0W|H Chain H, Pfa2 Fab Complexed With Abeta1-8
Length = 223
Score = 26.9 bits (58), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD+++Y+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDKNYNPSLKSQLTISKDTSRNQVFLKITSVDTADTATYYC 97
>pdb|2IQ9|H Chain H, Pfa2 Fab Fragment, Triclinic Apo Form
pdb|2IQA|H Chain H, Pfa2 Fab Fragment, Monoclinic Apo Form
pdb|2IQA|B Chain B, Pfa2 Fab Fragment, Monoclinic Apo Form
Length = 223
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHC 70
DD+++Y+ + L D+ +++F I V DT ++C
Sbjct: 56 DDDKNYNPSLKSQLTISKDTSRNQVFLKITSVDTADTATYYC 97
>pdb|3SN6|N Chain N, Crystal Structure Of The Beta2 Adrenergic Receptor-Gs
Protein Complex
Length = 138
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/39 (25%), Positives = 21/39 (53%)
Query: 33 SYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
SY G + G D+ + ++ + ++ +DT V++CA
Sbjct: 59 SYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCA 97
>pdb|2J88|H Chain H, Hyaluronidase In Complex With A Monoclonal Igg Fab
Fragment
Length = 191
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCAL 72
DD++ Y+ + L D+ +++F I V DT ++C L
Sbjct: 56 DDDKRYNPSLKSRLTISKDTSRNQVFLKITSVDTADTATYYCTL 99
>pdb|3QQ9|H Chain H, Crystal Structure Of Fab Fragment Of Anti-Human Rsv
(Respiratory Syncytial Virus) F Protein Mab 101f
pdb|3QQ9|D Chain D, Crystal Structure Of Fab Fragment Of Anti-Human Rsv
(Respiratory Syncytial Virus) F Protein Mab 101f
Length = 227
Score = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
DD++ Y+ + L D+ +++F I V DT ++CA
Sbjct: 56 DDDKRYNPSLKSRLTISKDTSRNQVFLKITSVDTADTATYYCA 98
>pdb|1ZVH|A Chain A, Crystal Stucture Of The Vhh Domain D2-L24 In Complex With
Hen Egg White Lysozyme
Length = 134
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/71 (18%), Positives = 32/71 (45%)
Query: 4 SISYISGSQLLSLKRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGK 63
SI+Y+ + K R +A + Y + G D+ + ++ + ++ +
Sbjct: 30 SINYLGWFRQAPGKEREGVAAVSPAGGTPYYADSVKGRFTVSLDNAENTVYLQMNSLKPE 89
Query: 64 DTLVFHCALSQ 74
DT +++CA ++
Sbjct: 90 DTALYYCAAAR 100
>pdb|2XA3|A Chain A, Crystal Structure Of The Broadly Neutralizing Llama Vhh
D7 And Its Mode Of Hiv-1 Gp120 Interaction
Length = 127
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 25/55 (45%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
K R +A I +Y + G D+ + ++ + ++ +DT V++CA
Sbjct: 43 KEREFVAAISWSGGTTNYVDSVKGRFDISKDNAKNAVYLQMNSLKPEDTAVYYCA 97
>pdb|3D1P|A Chain A, Atomic Resolution Structure Of Uncharacterized Protein
From Saccharomyces Cerevisiae
Length = 139
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 12/76 (15%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDL----------IQEVRGKDTL 66
K PN+ ++DVR+ HI S++ P S D F L I + L
Sbjct: 36 KHDPNVVLVDVREPSEYSIVHIPASINVPYRSHPD-AFALDPLEFEKQIGIPKPDSAKEL 94
Query: 67 VFHCALSQVRGPTCAK 82
+F+CA S RG K
Sbjct: 95 IFYCA-SGKRGGEAQK 109
>pdb|1T3F|B Chain B, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab (Huzaf) In P21 21 21 Space Group
Length = 220
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 22/50 (44%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
I ID D E Y+ D T+ + + +R +DT V++CA
Sbjct: 48 IGRIDPSDGEVHYNQDFKDKATLTVDKSTNTAYMELSSLRSEDTAVYYCA 97
>pdb|1T04|B Chain B, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab In C2 Space Group
pdb|1T04|D Chain D, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab In C2 Space Group
Length = 219
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 22/50 (44%)
Query: 22 IAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
I ID D E Y+ D T+ + + +R +DT V++CA
Sbjct: 48 IGRIDPSDGEVHYNQDFKDKATLTVDKSTNTAYMELSSLRSEDTAVYYCA 97
>pdb|1G6V|K Chain K, Complex Of The Camelid Heavy-Chain Antibody Fragment Cab-
Ca05 With Bovine Carbonic Anhydrase
Length = 126
Score = 26.2 bits (56), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 2/71 (2%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVR 76
K R +A I Y + G D+ + ++ + ++ +DT +++CA S V
Sbjct: 43 KEREGVATI--LGGSTYYGDSVKGRFTISQDNAKNTVYLQMNSLKPEDTAIYYCAGSTVA 100
Query: 77 GPTCAKRLANY 87
RL Y
Sbjct: 101 STGWCSRLRPY 111
>pdb|1Y3K|A Chain A, Solution Structure Of The Apo Form Of The Fifth Domain Of
Menkes Protein
pdb|1Y3J|A Chain A, Solution Structure Of The Copper(I) Form Of The Fifth
Domain Of Menkes Protein
Length = 77
Score = 26.2 bits (56), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 74 QVRGPTCAKRLANYLDEVKEDTGINSIFV 102
QV G TCA +AN ++ + GI SI V
Sbjct: 8 QVTGMTCASCVANIERNLRREEGIYSILV 36
>pdb|2FL5|H Chain H, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|B Chain B, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|D Chain D, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|F Chain F, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
Length = 220
Score = 26.2 bits (56), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 24 VIDVRDDE--RSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCA 71
V ++R DE + Y + G D+ + +F+ + R +DT ++CA
Sbjct: 48 VTNIRPDETEKFYSDSVKGRFTVSRDNARNSLFNSMSLQRVEDTATYYCA 97
>pdb|1F2X|K Chain K, Structure Of The Single-Domain Camelid Antibody Cab-Ca05
pdb|1F2X|L Chain L, Structure Of The Single-Domain Camelid Antibody Cab-Ca05
Length = 135
Score = 26.2 bits (56), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 2/71 (2%)
Query: 17 KRRPNIAVIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVR 76
K R +A I Y + G D+ + ++ + ++ +DT +++CA S V
Sbjct: 43 KEREGVATI--LGGSTYYGDSVKGRFTISQDNAKNTVYLQMNSLKPEDTAIYYCAGSTVA 100
Query: 77 GPTCAKRLANY 87
RL Y
Sbjct: 101 STGWCSRLRPY 111
>pdb|3MCK|H Chain H, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
pdb|3MCK|B Chain B, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
Length = 228
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%)
Query: 29 DDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALS 73
DD++ Y+ + L D+ +++F I V DT ++C S
Sbjct: 56 DDDKRYNPSLKSRLTISKDTSRNQVFLKITSVDTTDTATYYCTRS 100
>pdb|2DD8|H Chain H, Crystal Structure Of Sars-Cov Spike Receptor-Binding
Domain Complexed With Neutralizing Antibody
pdb|2G75|A Chain A, Crystal Structure Of Anti-Sars M396 Antibody
pdb|2G75|C Chain C, Crystal Structure Of Anti-Sars M396 Antibody
Length = 245
Score = 25.4 bits (54), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 24 VIDVRDDERSYDGHITGSLHYPSDSFTDKIFDLIQEVRGKDTLVFHCALSQVRG 77
++ + + + + G +T +D T + + +R +DT V++CA V G
Sbjct: 54 ILGIANYAQKFQGRVT----ITTDESTSTAYMELSSLRSEDTAVYYCARDTVMG 103
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 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,825,637
Number of Sequences: 62578
Number of extensions: 146485
Number of successful extensions: 765
Number of sequences better than 100.0: 114
Number of HSP's better than 100.0 without gapping: 90
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 672
Number of HSP's gapped (non-prelim): 117
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
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: 46 (22.3 bits)