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= psy6849
(439 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N27|A Chain A, Solution Structure Of The Pwwp Domain Of Mouse Hepatoma-
Derived Growth Factor, Related Protein 3
Length = 96
Score = 86.3 bits (212), Expect = 3e-17, Method: Composition-based stats.
Identities = 44/82 (53%), Positives = 54/82 (65%), Gaps = 2/82 (2%)
Query: 7 KFKTNDKVFAKVRGYPPWPARIEGLADET--PNRLKYHIFFYGTRETGICRQDELFPYTE 64
++K D VFAK++GYP WPARI+ L + P KY IFF+GT ET +LFPY E
Sbjct: 8 EYKAGDLVFAKMKGYPHWPARIDELPEGAVKPPANKYPIFFFGTHETAFLGPKDLFPYKE 67
Query: 65 FKDKYGKGVKRKFFTEALQEIE 86
+KDK+GK KRK F E L EIE
Sbjct: 68 YKDKFGKSNKRKGFNEGLWEIE 89
>pdb|3EAE|A Chain A, Pwwp Domain Of Human Hepatoma-Derived Growth Factor 2
(Hdgf2)
pdb|3EAE|B Chain B, Pwwp Domain Of Human Hepatoma-Derived Growth Factor 2
(Hdgf2)
Length = 93
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 45/85 (52%), Positives = 54/85 (63%), Gaps = 2/85 (2%)
Query: 4 VERKFKTNDKVFAKVRGYPPWPARIEGLADET--PNRLKYHIFFYGTRETGICRQDELFP 61
+ FK D VFAK++GYP WPARI+ +AD P KY IFF+GT ET +LFP
Sbjct: 1 MPHAFKPGDLVFAKMKGYPHWPARIDDIADGAVKPPPNKYPIFFFGTHETAFLGPKDLFP 60
Query: 62 YTEFKDKYGKGVKRKFFTEALQEIE 86
Y + KDKYGK KRK F E L EI+
Sbjct: 61 YDKCKDKYGKPNKRKGFNEGLWEIQ 85
>pdb|3QBY|A Chain A, Crystal Structure Of The Pwwp Domain Of Human
Hepatoma-Derived Growth Factor 2
pdb|3QBY|B Chain B, Crystal Structure Of The Pwwp Domain Of Human
Hepatoma-Derived Growth Factor 2
pdb|3QBY|C Chain C, Crystal Structure Of The Pwwp Domain Of Human
Hepatoma-Derived Growth Factor 2
pdb|3QJ6|A Chain A, The Crystal Structure Of Pwwp Domain Of Human
Hepatoma-Derived Growth Factor 2 In Complex With
H3k79me3 Peptide
Length = 94
Score = 84.3 bits (207), Expect = 1e-16, Method: Composition-based stats.
Identities = 45/81 (55%), Positives = 53/81 (65%), Gaps = 2/81 (2%)
Query: 8 FKTNDKVFAKVRGYPPWPARIEGLADET--PNRLKYHIFFYGTRETGICRQDELFPYTEF 65
FK D VFAK++GYP WPARI+ +AD P KY IFF+GT ET +LFPY +
Sbjct: 6 FKPGDLVFAKMKGYPHWPARIDDIADGAVKPPPNKYPIFFFGTHETAFLGPKDLFPYDKC 65
Query: 66 KDKYGKGVKRKFFTEALQEIE 86
KDKYGK KRK F E L EI+
Sbjct: 66 KDKYGKPNKRKGFNEGLWEIQ 86
>pdb|4FU6|A Chain A, Crystal Structure Of The Psip1 Pwwp Domain
Length = 153
Score = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 55/88 (62%), Gaps = 2/88 (2%)
Query: 3 AVERKFKTNDKVFAKVRGYPPWPARIEGLADET--PNRLKYHIFFYGTRETGICRQDELF 60
+ R FK D +FAK++GYP WPAR++ + D P K IFF+GT ET ++F
Sbjct: 18 GMTRDFKPGDLIFAKMKGYPHWPARVDEVPDGAVKPPTNKLPIFFFGTHETAFLGPKDIF 77
Query: 61 PYTEFKDKYGKGVKRKFFTEALQEIECD 88
PY+E K+KYGK KRK F E L EI+ +
Sbjct: 78 PYSENKEKYGKPNKRKGFNEGLWEIDNN 105
>pdb|2B8A|A Chain A, High Resolution Structure Of The Hdgf Pwwp Domain
Length = 110
Score = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 43/86 (50%), Positives = 55/86 (63%), Gaps = 6/86 (6%)
Query: 5 ERKFKTNDKVFAKVRGYPPWPARI----EGLADETPNRLKYHIFFYGTRETGICRQDELF 60
++++K D VFAK++GYP WPARI E T N KY +FF+GT ET +LF
Sbjct: 7 QKEYKCGDLVFAKMKGYPHWPARIDEMPEAAVKSTAN--KYQVFFFGTHETAFLGPKDLF 64
Query: 61 PYTEFKDKYGKGVKRKFFTEALQEIE 86
PY E K+K+GK KRK F+E L EIE
Sbjct: 65 PYEESKEKFGKPNKRKGFSEGLWEIE 90
>pdb|2NLU|A Chain A, Domain-Swapped Dimer Of The Pwwp Module Of Human
Hepatoma- Derived Growth Factor
pdb|2NLU|B Chain B, Domain-Swapped Dimer Of The Pwwp Module Of Human
Hepatoma- Derived Growth Factor
Length = 100
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 43/86 (50%), Positives = 55/86 (63%), Gaps = 6/86 (6%)
Query: 5 ERKFKTNDKVFAKVRGYPPWPARI----EGLADETPNRLKYHIFFYGTRETGICRQDELF 60
++++K D VFAK++GYP WPARI E T N KY +FF+GT ET +LF
Sbjct: 7 QKEYKCGDLVFAKMKGYPHWPARIDEMPEAAVKSTAN--KYQVFFFGTHETAFLGPKDLF 64
Query: 61 PYTEFKDKYGKGVKRKFFTEALQEIE 86
PY E K+K+GK KRK F+E L EIE
Sbjct: 65 PYEESKEKFGKPNKRKGFSEGLWEIE 90
>pdb|1RI0|A Chain A, Nmr Structure Of The N-Terminal Hath Domain Of Human Hdgf
Length = 110
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 43/86 (50%), Positives = 55/86 (63%), Gaps = 6/86 (6%)
Query: 5 ERKFKTNDKVFAKVRGYPPWPARI----EGLADETPNRLKYHIFFYGTRETGICRQDELF 60
++++K D VFAK++GYP WPARI E T N KY +FF+GT ET +LF
Sbjct: 17 QKEYKCGDLVFAKMKGYPHWPARIDEMPEAAVKSTAN--KYQVFFFGTHETAFLGPKDLF 74
Query: 61 PYTEFKDKYGKGVKRKFFTEALQEIE 86
PY E K+K+GK KRK F+E L EIE
Sbjct: 75 PYEESKEKFGKPNKRKGFSEGLWEIE 100
>pdb|2M16|A Chain A, P75/ledgf Pwwp Domain
Length = 97
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 56/88 (63%), Gaps = 2/88 (2%)
Query: 3 AVERKFKTNDKVFAKVRGYPPWPARIEGLADET--PNRLKYHIFFYGTRETGICRQDELF 60
++ R FK D +FAK++GYP WPAR++ + D P K IFF+GT ET ++F
Sbjct: 4 SMTRDFKPGDLIFAKMKGYPHWPARVDEVPDGAVKPPTNKLPIFFFGTHETAFLGPKDIF 63
Query: 61 PYTEFKDKYGKGVKRKFFTEALQEIECD 88
PY+E K+KYGK KRK F E L EI+ +
Sbjct: 64 PYSENKEKYGKPNKRKGFNEGLWEIDNN 91
>pdb|3HPH|E Chain E, Closed Tetramer Of Visna Virus Integrase (Residues 1-219)
In Complex With Ledgf Ibd
pdb|3HPH|F Chain F, Closed Tetramer Of Visna Virus Integrase (Residues 1-219)
In Complex With Ledgf Ibd
pdb|3HPH|G Chain G, Closed Tetramer Of Visna Virus Integrase (Residues 1-219)
In Complex With Ledgf Ibd
pdb|3HPH|H Chain H, Closed Tetramer Of Visna Virus Integrase (Residues 1-219)
In Complex With Ledgf Ibd
Length = 94
Score = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 55/99 (55%), Gaps = 20/99 (20%)
Query: 305 IDLRIKDSIGLEHADCDECLKALDDLINLPITPLVLKKHPEIVDTCRRLQRYTGNIAEWT 364
I IK+S+ +++ D + C++ALD+L +L +T +KH E++ T ++++R+
Sbjct: 8 IHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRF-------- 59
Query: 365 MTEEEAEVFTQKASQV-RAKADHVYNKFKNLFTVPAGET 402
K SQV K+ +YNKFKN+F V G++
Sbjct: 60 -----------KVSQVIMEKSTMLYNKFKNMFLVGEGDS 87
>pdb|3F9K|C Chain C, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|G Chain G, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|K Chain K, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|O Chain O, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|S Chain S, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|W Chain W, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|AA Chain a, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|EE Chain e, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|II Chain i, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|MM Chain m, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|QQ Chain q, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3F9K|UU Chain u, Two Domain Fragment Of Hiv-2 Integrase In Complex With
Ledgf Ibd
pdb|3HPG|G Chain G, Visna Virus Integrase (Residues 1-219) In Complex With
Ledgf Ibd: Examples Of Open Integrase Dimer-Dimer
Interfaces
pdb|3HPG|H Chain H, Visna Virus Integrase (Residues 1-219) In Complex With
Ledgf Ibd: Examples Of Open Integrase Dimer-Dimer
Interfaces
pdb|3HPG|I Chain I, Visna Virus Integrase (Residues 1-219) In Complex With
Ledgf Ibd: Examples Of Open Integrase Dimer-Dimer
Interfaces
pdb|3HPG|J Chain J, Visna Virus Integrase (Residues 1-219) In Complex With
Ledgf Ibd: Examples Of Open Integrase Dimer-Dimer
Interfaces
pdb|3HPG|K Chain K, Visna Virus Integrase (Residues 1-219) In Complex With
Ledgf Ibd: Examples Of Open Integrase Dimer-Dimer
Interfaces
pdb|3HPG|L Chain L, Visna Virus Integrase (Residues 1-219) In Complex With
Ledgf Ibd: Examples Of Open Integrase Dimer-Dimer
Interfaces
Length = 95
Score = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 55/99 (55%), Gaps = 20/99 (20%)
Query: 305 IDLRIKDSIGLEHADCDECLKALDDLINLPITPLVLKKHPEIVDTCRRLQRYTGNIAEWT 364
I IK+S+ +++ D + C++ALD+L +L +T +KH E++ T ++++R+
Sbjct: 9 IHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRF-------- 60
Query: 365 MTEEEAEVFTQKASQV-RAKADHVYNKFKNLFTVPAGET 402
K SQV K+ +YNKFKN+F V G++
Sbjct: 61 -----------KVSQVIMEKSTMLYNKFKNMFLVGEGDS 88
>pdb|2B4J|C Chain C, Structural Basis For The Recognition Between Hiv-1
Integrase And LedgfP75
pdb|2B4J|D Chain D, Structural Basis For The Recognition Between Hiv-1
Integrase And LedgfP75
Length = 98
Score = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 55/99 (55%), Gaps = 20/99 (20%)
Query: 305 IDLRIKDSIGLEHADCDECLKALDDLINLPITPLVLKKHPEIVDTCRRLQRYTGNIAEWT 364
I IK+S+ +++ D + C++ALD+L +L +T +KH E++ T ++++R+
Sbjct: 11 IHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRF-------- 62
Query: 365 MTEEEAEVFTQKASQV-RAKADHVYNKFKNLFTVPAGET 402
K SQV K+ +YNKFKN+F V G++
Sbjct: 63 -----------KVSQVIMEKSTMLYNKFKNMFLVGEGDS 90
>pdb|3U88|C Chain C, Crystal Structure Of Human Menin In Complex With Mll1 And
Ledgf
pdb|3U88|D Chain D, Crystal Structure Of Human Menin In Complex With Mll1 And
Ledgf
Length = 89
Score = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 55/99 (55%), Gaps = 20/99 (20%)
Query: 305 IDLRIKDSIGLEHADCDECLKALDDLINLPITPLVLKKHPEIVDTCRRLQRYTGNIAEWT 364
I IK+S+ +++ D + C++ALD+L +L +T +KH E++ T ++++R+
Sbjct: 9 IHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRF-------- 60
Query: 365 MTEEEAEVFTQKASQV-RAKADHVYNKFKNLFTVPAGET 402
K SQV K+ +YNKFKN+F V G++
Sbjct: 61 -----------KVSQVIMEKSTMLYNKFKNMFLVGEGDS 88
>pdb|1Z9E|A Chain A, Solution Structure Of The Hiv-1 Integrase-Binding Domain
In LedgfP75
Length = 127
Score = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 55/99 (55%), Gaps = 20/99 (20%)
Query: 305 IDLRIKDSIGLEHADCDECLKALDDLINLPITPLVLKKHPEIVDTCRRLQRYTGNIAEWT 364
I IK+S+ +++ D + C++ALD+L +L +T +KH E++ T ++++R+
Sbjct: 11 IHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRF-------- 62
Query: 365 MTEEEAEVFTQKASQV-RAKADHVYNKFKNLFTVPAGET 402
K SQV K+ +YNKFKN+F V G++
Sbjct: 63 -----------KVSQVIMEKSTMLYNKFKNMFLVGEGDS 90
>pdb|2DAQ|A Chain A, Solution Structure Of Second Pwwp Domain Of Whsc1l1
Protein
Length = 110
Score = 33.9 bits (76), Expect = 0.21, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 15/83 (18%)
Query: 14 VFAKVRGYPPWPARI----------EGLADETPNRLKYHIFFYGTRETGICRQDELFPYT 63
V+ K+ Y WPA I +GL + + + +FF+G+ + Q +FPY
Sbjct: 15 VWVKLGNYRWWPAEICNPRSVPLNIQGLKHDLGD---FPVFFFGSHDYYWVHQGRVFPYV 71
Query: 64 EFKDKYGKGVK--RKFFTEALQE 84
E + +G K F +AL+E
Sbjct: 72 EGDKSFAEGQTSINKTFKKALEE 94
>pdb|2CG8|A Chain A, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
pdb|2CG8|B Chain B, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
pdb|2CG8|C Chain C, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
pdb|2CG8|D Chain D, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
Length = 270
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 347 VDTC-----RRLQRYTGNIAEWTMTEEEAEVFTQKASQVRAKADHVYNKFKNLFTVPAGE 401
+DTC RR QR + M +++A + Q ++RA+ H+ + L T P G
Sbjct: 108 LDTCSVTIHRRKQRAFIALGS-NMGDKQANL-KQAIDKLRARGIHILKESSVLATEPWGG 165
Query: 402 TFWDTFSKQLVTFNDVTRNMPAHDLF 427
D+F+ Q+V +V +PA DL
Sbjct: 166 VEQDSFANQVV---EVETWLPAQDLL 188
>pdb|3P5J|A Chain A, The Structure Of The Human Rnase H2 Complex Defines Key
Interaction Interfaces Relevant To Enzyme Function And
Human Disease
Length = 301
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 7/67 (10%)
Query: 30 GLADETPNRLKYHIFFYGTRETGICRQDELFPYTEFKDKYGK-----GVKRKFFTEALQE 84
G+ + RL+ H F G T + D LFP + K VK F E LQ+
Sbjct: 145 GMPETYQARLQQH--FPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQD 202
Query: 85 IECDFGT 91
++ D+G+
Sbjct: 203 LDSDYGS 209
>pdb|2GFU|A Chain A, Nmr Solution Structure Of The Pwwp Domain Of Mismatch
Repair Protein Hmsh6
Length = 134
Score = 30.0 bits (66), Expect = 3.0, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 7/68 (10%)
Query: 8 FKTNDKVFAKVRGYPPWPARIEG------LADETPNRLKYHIFFYGTRET-GICRQDELF 60
F D V+AK+ GYP WP+ + E ++ H+ F+ T G + L
Sbjct: 23 FSPGDLVWAKMEGYPWWPSLVYNHPFDGTFIREKGKSVRVHVQFFDDSPTRGWVSKRLLK 82
Query: 61 PYTEFKDK 68
PYT K K
Sbjct: 83 PYTGSKSK 90
>pdb|2W4A|B Chain B, Isometrically Contracting Insect Asynchronous Flight
Muscle
pdb|2W4G|B Chain B, Isometrically Contracting Insect Asynchronous Flight
Muscle Quick Frozen After A Quick Stretch Step
pdb|2W4H|B Chain B, Isometrically Contracting Insect Asynchronous Flight
Muscle Quick Frozen After A Quick Release Step
Length = 150
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 28 IEGLADETPNRLKYHIFF--YGTRETGICRQDELFPYTEFKDKYGKGVKRKFFTEALQEI 85
++ + E + + +F +G + G +D + + D GKG +K F E L
Sbjct: 51 LDAMIKEASGPINFTVFLTMFGEKLKGADPEDVIMGAFKVLDPDGKGSIKKSFLEELLTT 110
Query: 86 ECDFGTPESRANL 98
+CD TPE N+
Sbjct: 111 QCDRFTPEEIKNM 123
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
0.315 0.133 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,267,862
Number of Sequences: 62578
Number of extensions: 546333
Number of successful extensions: 830
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 803
Number of HSP's gapped (non-prelim): 18
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)