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= 015660
(403 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YA9|A Chain A, Crystal Structure Of The 22kda N-Terminal Fragment Of
Mouse Apolipoprotein E
Length = 181
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 300 VDWLRNILNEISEAIEFSTQHQTIDAAKANCVNLLESTKKELESQMNELALKEKEVAGLK 359
+ W++ + +++ E ++ S Q + A + + +++ KKELE Q+ +A E+ A L
Sbjct: 28 LRWVQTLSDQVQEELQSSQVTQELTALMEDTMTEVKAYKKELEEQLGPVA--EETRARLG 85
Query: 360 ESVAKTKARL-SDLELESNRLEQ 381
+ V +ARL +D+E NRL Q
Sbjct: 86 KEVQAAQARLGADMEDLRNRLGQ 108
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 1/83 (1%)
Query: 322 TIDAAKANCVNL-LESTKKELESQMNELALKEKEVAGLKESVAKTKARLSDLELESNRLE 380
+ D NC N+ L S + + L L ++ L+ V L L SN+L
Sbjct: 11 SCDQTLVNCQNIRLASVPAGIPTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLT 70
Query: 381 QIIQATQSKVTKFSQKSLADEIL 403
I K+T+ +Q L D L
Sbjct: 71 AIPTGVFDKLTQLTQLDLNDNHL 93
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 34/70 (48%)
Query: 334 LESTKKELESQMNELALKEKEVAGLKESVAKTKARLSDLELESNRLEQIIQATQSKVTKF 393
L S + + L L + ++ L+ V +L+ L+L++N+L + K+T+
Sbjct: 21 LASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQL 80
Query: 394 SQKSLADEIL 403
+Q SL D L
Sbjct: 81 TQLSLNDNQL 90
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 34/70 (48%)
Query: 334 LESTKKELESQMNELALKEKEVAGLKESVAKTKARLSDLELESNRLEQIIQATQSKVTKF 393
L S + + L L + ++ L+ V +L+ L+L++N+L + K+T+
Sbjct: 29 LASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQL 88
Query: 394 SQKSLADEIL 403
+Q SL D L
Sbjct: 89 TQLSLNDNQL 98
>pdb|1YLW|A Chain A, X-ray Structure Of Ctx-m-16 Beta-lactamase
Length = 263
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 26 CLEKIAQGHGHKETPKKKLGSWSFGRKNKASDSQPGTPLTPRAVDKVAVGG 76
L ++ GH ET + +L +W G A+ + G P + A DK GG
Sbjct: 164 TLRQLTLGHALGETQRAQLVTWLKGNTTGAASIRAGLPTSWTAGDKTGSGG 214
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%)
Query: 343 SQMNELALKEKEVAGLKESVAKTKARLSDLELESNRLEQIIQATQSKVTKFSQKSLAD 400
+Q+ ELAL ++ L + V +L DL L N+L+ + ++T L D
Sbjct: 100 TQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHD 157
>pdb|1YLP|A Chain A, Atomic Resolution Structure Of Ctx-M-27 Beta-Lactamase
Length = 263
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 23/51 (45%)
Query: 26 CLEKIAQGHGHKETPKKKLGSWSFGRKNKASDSQPGTPLTPRAVDKVAVGG 76
L ++ GH ET + +L +W G A+ + G P + DK GG
Sbjct: 164 TLRQLTLGHALGETQRAQLVTWLKGNTTGAASIRAGLPTSWTVGDKTGSGG 214
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 343 SQMNELALKEKEVAGLKESVAKTKARLSDLELESNRLEQIIQATQSKVTKFSQKSLAD 400
+ + L L ++ L + V L+ L+L++N+L+ + + K+T+ Q SL D
Sbjct: 133 TNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLND 190
>pdb|1YLJ|A Chain A, Atomic Resolution Structure Of Ctx-M-9 Beta-Lactamase
pdb|1YLY|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Ceftazidime-Like Boronic Acid
pdb|1YLY|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Ceftazidime-Like Boronic Acid
pdb|1YM1|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With A Boronic Acid Inhibitor (Sm2)
pdb|1YM1|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With A Boronic Acid Inhibitor (Sm2)
pdb|1YMS|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Nafcinin-Like Boronic Acid Inhibitor
pdb|1YMS|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Nafcinin-Like Boronic Acid Inhibitor
pdb|1YMX|A Chain A, X-ray Crystallographic Structure Of Ctx-m-9 Beta-lactamase
Covalently Linked To Cefoxitin
pdb|1YMX|B Chain B, X-ray Crystallographic Structure Of Ctx-m-9 Beta-lactamase
Covalently Linked To Cefoxitin
pdb|3G2Z|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 2
(Gz2)
pdb|3G2Z|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 2
(Gz2)
pdb|3G30|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 3
(G30)
pdb|3G31|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
(Gf1)
pdb|3G31|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
(Gf1)
pdb|3G32|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 6
(3g3)
pdb|3G32|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 6
(3g3)
pdb|3G34|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
(1ce)
pdb|3G34|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
(1ce)
pdb|3G35|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
(F13)
pdb|3G35|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
(F13)
Length = 263
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 26 CLEKIAQGHGHKETPKKKLGSWSFGRKNKASDSQPGTPLTPRAVDKVAVG 75
L ++ GH ET + +L +W G A+ + G P + A DK G
Sbjct: 164 TLRQLTLGHALGETQRAQLVTWLKGNTTGAASIRAGLPTSWTAGDKTGSG 213
>pdb|2P74|A Chain A, Ctx-M-9 Class A Beta-Lactamase Apo Crystal Structure At
0.88 Angstrom Resolution
pdb|2P74|B Chain B, Ctx-M-9 Class A Beta-Lactamase Apo Crystal Structure At
0.88 Angstrom Resolution
pdb|3G2Y|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 1
(Gf4)
pdb|3G2Y|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 1
(Gf4)
pdb|4DDS|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
pdb|4DDS|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
pdb|4DDY|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 10
pdb|4DDY|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 10
pdb|4DE0|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 16
pdb|4DE0|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 16
pdb|4DE1|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 18
pdb|4DE1|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 18
pdb|4DE2|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
pdb|4DE2|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
pdb|4DE3|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
pdb|4DE3|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
Length = 263
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 26 CLEKIAQGHGHKETPKKKLGSWSFGRKNKASDSQPGTPLTPRAVDKVAVG 75
L ++ GH ET + +L +W G A+ + G P + A DK G
Sbjct: 164 TLRQLTLGHALGETQRAQLVTWLKGNTTGAASIRAGLPTSWTAGDKTGSG 213
>pdb|3HUO|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Benzylpenicillin
pdb|3HUO|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Benzylpenicillin
pdb|3HVF|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Hydrolyzed Benzylpenicillin
pdb|3HVF|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Hydrolyzed Benzylpenicillin
pdb|3HLW|A Chain A, Ctx-M-9 S70g In Complex With Cefotaxime
pdb|3HLW|B Chain B, Ctx-M-9 S70g In Complex With Cefotaxime
pdb|3HRE|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 S70g
pdb|3HRE|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 S70g
pdb|3Q07|A Chain A, Ctx-M-9 S70g In Complex With Piperacillin
pdb|3Q07|B Chain B, Ctx-M-9 S70g In Complex With Piperacillin
pdb|3Q1F|A Chain A, Ctx-M-9 S70g In Complex With Hydrolyzed Piperacillin
pdb|3Q1F|B Chain B, Ctx-M-9 S70g In Complex With Hydrolyzed Piperacillin
Length = 263
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 26 CLEKIAQGHGHKETPKKKLGSWSFGRKNKASDSQPGTPLTPRAVDKVAVG 75
L ++ GH ET + +L +W G A+ + G P + A DK G
Sbjct: 164 TLRQLTLGHALGETQRAQLVTWLKGNTTGAASIRAGLPTSWTAGDKTGSG 213
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 30/56 (53%)
Query: 343 SQMNELALKEKEVAGLKESVAKTKARLSDLELESNRLEQIIQATQSKVTKFSQKSL 398
+Q+ +L+L + ++ L + V +L+ L L N+L+ + K+T+ + +L
Sbjct: 52 TQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELAL 107
>pdb|1IQV|A Chain A, Crystal Structure Analysis Of The Archaebacterial
Ribosomal Protein S7
Length = 218
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 93 KVESENGKSFSRPEHFSREIHPEDHSLNKEKVRSTQSVPPSENIKMNDMSKSPPKESVTS 152
KV G + HF R E SLN +KVR+ + V + I K+P + V +
Sbjct: 73 KVMRSGGSHYKVAGHFMRR---EHRSLNSKKVRAYEVVKEAFKIIEKRTGKNPIQVLVWA 129
Query: 153 LPGASPSKN 161
+ A+P ++
Sbjct: 130 IENAAPRED 138
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
0.307 0.124 0.341
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,243,933
Number of Sequences: 62578
Number of extensions: 442315
Number of successful extensions: 1102
Number of sequences better than 100.0: 69
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 44
Number of HSP's that attempted gapping in prelim test: 1069
Number of HSP's gapped (non-prelim): 80
length of query: 403
length of database: 14,973,337
effective HSP length: 101
effective length of query: 302
effective length of database: 8,652,959
effective search space: 2613193618
effective search space used: 2613193618
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 53 (25.0 bits)