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= psy986
(71 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QND|A Chain A, Crystal Structure Of The Kh1-Kh2 Domains From Human
Fragile X Mental Retardation Protein
pdb|2QND|B Chain B, Crystal Structure Of The Kh1-Kh2 Domains From Human
Fragile X Mental Retardation Protein
Length = 144
Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 42/63 (66%), Positives = 54/63 (85%), Gaps = 2/63 (3%)
Query: 1 MLEYSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQPTLPREEGQVPF 60
LE++E+ +QVPRNLVGKVIGKNG++IQEIVDKSGVVRV+IE +NE +P+EEG VPF
Sbjct: 63 FLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENE--KNVPQEEGXVPF 120
Query: 61 MVL 63
+ +
Sbjct: 121 VFV 123
>pdb|1WE8|A Chain A, Solution Structure Of Kh Domain In Protein Bab28342
Length = 104
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQPTL 51
E L VP+ VG++IG+ G I+ I SG KI D E + TL
Sbjct: 17 EQLSVPQRSVGRIIGRGGETIRSICKASG---AKITCDKESEGTL 58
>pdb|1J4W|A Chain A, Complex Of The Kh3 And Kh4 Domains Of Fbp With A
Single_stranded 29mer Dna Oligonucleotide From The Fuse
Element Of The C-Myc Oncogene
Length = 174
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 27/39 (69%), Gaps = 1/39 (2%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
+PR VG VIG+NG +I++I + +G VR++ + D+ P
Sbjct: 9 IPRFAVGIVIGRNGEMIKKIQNDAG-VRIQFKPDDGTTP 46
>pdb|2P2R|A Chain A, Crystal Structure Of The Third Kh Domain Of Human
Poly(C)- Binding Protein-2 In Complex With C-Rich
Strand Of Human Telomeric Dna
Length = 76
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 3 EYSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKI----EGDNEPQPTLPREEGQV 58
+ + L +P +L+G +IG+ G I EI SG ++KI EG + Q T+ +
Sbjct: 3 QTTSHELTIPNDLIGCIIGRQGAKINEIRQXSG-AQIKIANPVEGSTDRQVTITGSAASI 61
Query: 59 PF 60
Sbjct: 62 SL 63
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc
Binding Protein
Length = 82
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 5/56 (8%)
Query: 9 LQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKI----EGDNEPQPTLPREEGQVPF 60
L +P NL+G +IG+ G I EI SG ++KI EG + Q T+ +
Sbjct: 10 LTIPNNLIGCIIGRQGANINEIRQMSG-AQIKIANPVEGSSGRQVTITGSAASISL 64
>pdb|4B8T|A Chain A, Rna Binding Protein Solution Structure Of The Third Kh
Domain Of Ksrp In Complex With The G-rich Target
Sequence
Length = 106
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 28/39 (71%), Gaps = 1/39 (2%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
VPR+ VG VIG++G +I++I + +G VR++ + D+ P
Sbjct: 17 VPRHSVGVVIGRSGEMIKKIQNDAG-VRIQFKQDDGTGP 54
>pdb|2HH3|A Chain A, Solution Structure Of The Third Kh Domain Of Ksrp
Length = 106
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 28/39 (71%), Gaps = 1/39 (2%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
VPR+ VG VIG++G +I++I + +G VR++ + D+ P
Sbjct: 17 VPRHSVGVVIGRSGEMIKKIQNDAG-VRIQFKQDDGTGP 54
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 9 LQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQPT 50
L VP + G +IGK G I+EI + +G +V++ GD P T
Sbjct: 93 LVVPASQCGSLIGKGGCKIKEIRESTG-AQVQVAGDMLPNST 133
>pdb|2JVZ|A Chain A, Solution Nmr Structure Of The Second And Third Kh Domains
Of Ksrp
Length = 164
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 28/39 (71%), Gaps = 1/39 (2%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
VPR+ VG VIG++G +I++I + +G VR++ + D+ P
Sbjct: 97 VPRHSVGVVIGRSGEMIKKIQNDAG-VRIQFKQDDGTGP 134
>pdb|1DTJ|A Chain A, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|B Chain B, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|C Chain C, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|D Chain D, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
Length = 76
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 9 LQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
+ VP NLVG ++GK G+ + E + +G R++I E P
Sbjct: 7 MAVPENLVGAILGKGGKTLVEYQELTG-ARIQISKKGEFLP 46
>pdb|4AM3|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
Length = 717
Score = 29.3 bits (64), Expect = 0.53, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGD 44
E++ +P + + +VIG G++I+EIV +G +V I D
Sbjct: 563 ETINIPTDKIREVIGSGGKVIREIVATTG-AKVDINDD 599
>pdb|4AIM|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 29.3 bits (64), Expect = 0.53, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGD 44
E++ +P + + +VIG G++I+EIV +G +V I D
Sbjct: 572 ETINIPTDKIREVIGSGGKVIREIVATTG-AKVDINDD 608
>pdb|4AID|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 29.3 bits (64), Expect = 0.53, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGD 44
E++ +P + + +VIG G++I+EIV +G +V I D
Sbjct: 572 ETINIPTDKIREVIGSGGKVIREIVATTG-AKVDINDD 608
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 9 LQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
+ VP NLVG ++GK G+ + E + +G R++I E P
Sbjct: 7 IAVPENLVGAILGKGGKTLVEYQELTG-CRIQISKKGEFLP 46
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
+P++L G +IGK G+ I++I +SG +KI+
Sbjct: 20 IPKDLAGSIIGKGGQRIKQIRHESG-ASIKID 50
>pdb|1EC6|A Chain A, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain Bound To 20-Mer Rna Hairpin
pdb|1EC6|B Chain B, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain Bound To 20-Mer Rna Hairpin
Length = 87
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 9 LQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQP 49
+ VP NLVG ++GK G+ + E + +G R++I E P
Sbjct: 7 IAVPENLVGAILGKGGKTLVEYQELTG-ARIQISKKGEFLP 46
>pdb|1ZZI|A Chain A, Crystal Structure Analysis Of The Third Kh Domain Of
Hnrnp K In Complex With Ssdna
pdb|1ZZI|B Chain B, Crystal Structure Analysis Of The Third Kh Domain Of
Hnrnp K In Complex With Ssdna
pdb|1ZZJ|A Chain A, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|B Chain B, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|C Chain C, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZK|A Chain A, Crystal Structure Of The Third Kh Domain Of Hnrnp K At
0.95a Resolution
Length = 82
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
+P++L G +IGK G+ I++I +SG +KI+
Sbjct: 13 IPKDLAGSIIGKGGQRIKQIRHESG-ASIKID 43
>pdb|1TG7|A Chain A, Native Structure Of Beta-Galactosidase From Penicillium
Sp.
pdb|1XC6|A Chain A, Native Structure Of Beta-Galactosidase From Penicillium
Sp. In Complex With Galactose
Length = 971
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 3/73 (4%)
Query: 1 MLEYS---EESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQPTLPREEGQ 57
+++YS +E+ + L G + G+N R G + + +G ++PQP + +
Sbjct: 782 IIQYSLSGQEASAISWKLTGNLGGENYRDTVRGPLNEGGLYAERQGFHQPQPPTQKWDSS 841
Query: 58 VPFMVLTKTVYRL 70
PF LTK R
Sbjct: 842 SPFTGLTKPGIRF 854
>pdb|1X4M|A Chain A, Solution Structure Of Kh Domain In Far Upstream Element
Binding Protein 1
Length = 94
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQPT 50
+ + +P + G VIGK G I+++ +++GV V I+ + PQ T
Sbjct: 17 QEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQ--DGPQNT 58
>pdb|4A4A|A Chain A, Cpgh89 (E483q, E601q), From Clostridium Perfringens, In
Complex With Its Substrate Glcnac-Alpha-1,4-Galactose
Length = 914
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 15/55 (27%)
Query: 5 SEESLQVPRNLVGKVIGK--------------NGRIIQEIVDKSGVVRVKIEGDN 45
+E++L +NLVG+VIG+ NG + E+ D SG +V I+G+N
Sbjct: 190 NEKTLNEIKNLVGRVIGREFKDKFIFEIRDQLNGNDVFEVSD-SGDGKVLIKGNN 243
>pdb|2VC9|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With 2-Acetamido-1,2-Dideoxynojirmycin
pdb|2VCA|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Beta-N-Acetyl-D-Glucosamine
pdb|2VCB|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Pugnac
pdb|2VCC|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
Length = 891
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 15/55 (27%)
Query: 5 SEESLQVPRNLVGKVIGK--------------NGRIIQEIVDKSGVVRVKIEGDN 45
+E++L +NLVG+VIG+ NG + E+ D SG +V I+G+N
Sbjct: 167 NEKTLNEIKNLVGRVIGREFKDKFIFEIRDQLNGNDVFEVSD-SGDGKVLIKGNN 220
>pdb|3KRM|A Chain A, Imp1 Kh34
pdb|3KRM|B Chain B, Imp1 Kh34
pdb|3KRM|C Chain C, Imp1 Kh34
Length = 163
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 6 EESLQVPRNLVGKVIGKNGRIIQEI 30
E ++VP + G+VIGK G+ + E+
Sbjct: 86 ETHIRVPASAAGRVIGKGGKTVNEL 110
>pdb|1URG|A Chain A, X-Ray Structures From The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius
pdb|1URS|A Chain A, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius
pdb|1URS|B Chain B, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius
Length = 402
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 21 GKNGRIIQEIVDKSGVVRVKIEGDNEPQPTLPREEGQVPFM 61
GK G + D + + + KI+ P PTLP + PF+
Sbjct: 245 GKIGMYVSGPWDTADIEKAKIDFGVTPWPTLPNGKHATPFL 285
>pdb|1URD|A Chain A, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius Provide Insight Into
Acid Stability Of Proteins
pdb|1URD|B Chain B, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius Provide Insight Into
Acid Stability Of Proteins
Length = 370
Score = 26.2 bits (56), Expect = 4.9, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 21 GKNGRIIQEIVDKSGVVRVKIEGDNEPQPTLPREEGQVPFM 61
GK G + D + + + KI+ P PTLP + PF+
Sbjct: 216 GKIGMYVSGPWDTADIEKAKIDFGVTPWPTLPNGKHATPFL 256
>pdb|3JUJ|A Chain A, The Crystal Structure Of Apo- Udp-Glucose
Pyrophosphorylase
pdb|3JUJ|B Chain B, The Crystal Structure Of Apo- Udp-Glucose
Pyrophosphorylase
pdb|3JUJ|C Chain C, The Crystal Structure Of Apo- Udp-Glucose
Pyrophosphorylase
pdb|3JUJ|D Chain D, The Crystal Structure Of Apo- Udp-Glucose
Pyrophosphorylase
pdb|3JUK|A Chain A, The Crystal Structure Of Udp-Glucose Pyrophosphorylase
Compl Udp-Glucose
pdb|3JUK|B Chain B, The Crystal Structure Of Udp-Glucose Pyrophosphorylase
Compl Udp-Glucose
pdb|3JUK|C Chain C, The Crystal Structure Of Udp-Glucose Pyrophosphorylase
Compl Udp-Glucose
pdb|3JUK|D Chain D, The Crystal Structure Of Udp-Glucose Pyrophosphorylase
Compl Udp-Glucose
Length = 281
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 1 MLEYS-EESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDNE 46
+++Y+ EE+++ ++ V G+N R +++ D S + +I+G N+
Sbjct: 35 LIQYAVEEAMEAGCEVMAIVTGRNKRSLEDYFDTSYEIEHQIQGTNK 81
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDN 45
E +VP +VG +IG+ G I +I SG +V+I D+
Sbjct: 18 EEYRVPDGMVGLIIGRGGEQINKIQQDSG-CKVQISPDS 55
>pdb|4G1M|B Chain B, Re-Refinement Of Alpha V Beta 3 Structure
Length = 692
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|4G1E|B Chain B, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 738
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|1JV2|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|B Chain B, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 692
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|3IJE|B Chain B, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 695
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|3FCS|B Chain B, Structure Of Complete Ectodomain Of Integrin Aiibb3
pdb|3FCS|D Chain D, Structure Of Complete Ectodomain Of Integrin Aiibb3
Length = 690
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|2CTJ|A Chain A, Solution Structure Of The 8th Kh Type I Domain From
Human Vigilin
Length = 95
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/41 (26%), Positives = 22/41 (53%)
Query: 1 MLEYSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKI 41
+ +E + +P L +IG GR+I+ I+++ G V +
Sbjct: 13 LANIAEVEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHF 53
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGV 36
VP + G +IGK G ++ I+++SG
Sbjct: 110 VPNSTAGLIIGKGGATVKAIMEQSGA 135
>pdb|3NID|B Chain B, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|D Chain D, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
Length = 471
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|3T3M|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 472
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|3VKE|A Chain A, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|B Chain B, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|C Chain C, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|D Chain D, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
Length = 76
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 16 VGKVIGKNGRIIQEIVDKSGVVRVKIEGDNEPQ 48
VG +IGK G ++ I ++SG R+ I N P+
Sbjct: 14 VGSIIGKKGESVKRIREESG-ARINISEGNSPE 45
>pdb|2VC2|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist L-739758
pdb|2VDK|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Tirofiban
pdb|2VDN|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Eptifibatide
pdb|2VDO|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide, Hhlggakqagdv
pdb|2VDP|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide,Lggakqagdv
pdb|2VDQ|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3FCU|B Chain B, Structure Of Headpiece Of Integrin Aiibb3 In Open
Conformation
pdb|3FCU|D Chain D, Structure Of Headpiece Of Integrin Aiibb3 In Open
Conformation
pdb|3FCU|F Chain F, Structure Of Headpiece Of Integrin Aiibb3 In Open
Conformation
Length = 461
Score = 25.4 bits (54), Expect = 7.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|1TYE|B Chain B, Structural Basis For Allostery In Integrins And Binding Of
Ligand- Mimetic Therapeutics To The Platelet Receptor
For Fibrinogen
pdb|1TYE|D Chain D, Structural Basis For Allostery In Integrins And Binding Of
Ligand- Mimetic Therapeutics To The Platelet Receptor
For Fibrinogen
pdb|1TYE|F Chain F, Structural Basis For Allostery In Integrins And Binding Of
Ligand- Mimetic Therapeutics To The Platelet Receptor
For Fibrinogen
Length = 440
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 4 YSEESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIE 42
Y S +P VG + + ++Q IVD G +R K+E
Sbjct: 318 YQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRSKVE 356
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein
1
Length = 92
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 7 ESLQVPRNLVGKVIGKNGRIIQEIVDKSGVVRVKIEGDN 45
E +VP +VG +IG+ G I I +SG +++I D+
Sbjct: 17 EEYKVPDGMVGFIIGRGGEQISRIQQESG-CKIQIAPDS 54
>pdb|1DKR|A Chain A, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1DKR|B Chain B, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1DKU|A Chain A, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1DKU|B Chain B, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1IBS|A Chain A, Phosphoribosyldiphosphate Synthetase In Complex With
Cadmium Ions
pdb|1IBS|B Chain B, Phosphoribosyldiphosphate Synthetase In Complex With
Cadmium Ions
Length = 317
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 14 NLVGKVIGKNGRIIQEIVDKSGVV 37
N+VG + GK +I +I+D +G +
Sbjct: 210 NIVGNIEGKTAILIDDIIDTAGTI 233
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 25.0 bits (53), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 11 VPRNLVGKVIGKNGRIIQEIVDKSGV 36
VP + G +IGK G ++ I ++SG
Sbjct: 110 VPNSTAGLIIGKGGATVKAIXEQSGA 135
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
0.314 0.137 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,165,129
Number of Sequences: 62578
Number of extensions: 77339
Number of successful extensions: 211
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 164
Number of HSP's gapped (non-prelim): 54
length of query: 71
length of database: 14,973,337
effective HSP length: 41
effective length of query: 30
effective length of database: 12,407,639
effective search space: 372229170
effective search space used: 372229170
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)