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= 028881
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
Cellular Modulator Of Immune Recognition Protein
Length = 80
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 55 SPSKLVECRICH-EEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQY 111
+PS CRICH E D++S + PC C GSL + H+ C+Q+W CE+C+ ++
Sbjct: 11 TPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF 68
>pdb|1VYX|A Chain A, Solution Structure Of The Kshv K3 N-Terminal Domain
Length = 60
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 62 CRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112
C IC+EE + C C G L+ HR C+ W +T C+IC YN
Sbjct: 9 CWICNEELGNERFR-ACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN 58
>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3
Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4710b
Length = 91
Score = 30.4 bits (67), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 27/62 (43%), Gaps = 15/62 (24%)
Query: 62 CRICHEE--DEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGYTAPP 119
C IC E D E+PC Y H+ CV W + G TC +CR + PP
Sbjct: 43 CPICCSEYVKGDVATELPCH-----HYFHKPCVSIWLQKSG--TCPVCRCMF------PP 89
Query: 120 PL 121
PL
Sbjct: 90 PL 91
>pdb|2AAA|A Chain A, Calcium Binding In Alpha-Amylases: An X-Ray Diffraction
Study At 2.1 Angstroms Resolution Of Two Enzymes From
Aspergillus
Length = 484
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%)
Query: 10 DRLLTESTIEAAIESGNGSQQATPSAKDDRTAEFSTHRMDKSIGSSPSKLVECRICHEED 69
D T+S A + +GSQ T + + T + S +S +KL+E C
Sbjct: 385 DAFYTDSNTIAMAKGTSGSQVITVLSNKGSSGSSYTLTLSGSGYTSGTKLIEAYTCTSVT 444
Query: 70 EDSNMEIPCSCCGSL 84
DS+ +IP L
Sbjct: 445 VDSSGDIPVPMASGL 459
>pdb|4E7Z|A Chain A, Myosin Vi (Md) Pre-Powerstroke State, P21 Crystal Form
pdb|4E7Z|B Chain B, Myosin Vi (Md) Pre-Powerstroke State, P21 Crystal Form
Length = 798
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 259 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 316
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 317 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 363
>pdb|4E7S|A Chain A, Myosin Vi D23r I24r R569e (Md) Pre-Powerstroke State
pdb|4E7S|B Chain B, Myosin Vi D23r I24r R569e (Md) Pre-Powerstroke State
Length = 798
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 259 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 316
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 317 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 363
>pdb|4DBR|A Chain A, Myosin Vi D179y (md) Pre-powerstroke State
Length = 786
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 247 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 304
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 305 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 351
>pdb|2V26|A Chain A, Myosin Vi (Md) Pre-Powerstroke State (Mg.Adp.Vo4)
Length = 784
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 246 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 303
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 304 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 350
>pdb|2BKH|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2) Crystal Structure
Length = 814
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 249 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 306
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 307 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 353
>pdb|2BKI|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2-Iq) Crystal Structure
Length = 858
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 250 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 307
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 308 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 354
>pdb|4DBP|A Chain A, Myosin Vi Nucleotide-free (mdinsert2) D179y Crystal
Structure
Length = 814
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 249 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 306
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 307 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 353
>pdb|4ANJ|A Chain A, Myosin Vi (Mdinsert2-Gfp Fusion) Pre-Powerstroke State
(Mg.Adp.Alf4)
Length = 1052
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 63 RICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGY----TAP 118
R+C ED + S + +Y +R C + + N++ D +I + + +P Y +
Sbjct: 250 RLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDK--QILQNRKSPEYLKAGSLK 307
Query: 119 PPLFRYGGNF----RANWEISGRDLHHNPQLITMVTGEREFLDSDFDE 162
PL G+F A +I G D L +V G + DF+E
Sbjct: 308 DPLLDDHGDFIRMCTAMKKI-GLDDEEKLDLFRVVAGVLHLGNIDFEE 354
>pdb|1IGR|A Chain A, Type 1 Insulin-Like Growth Factor Receptor (Domains 1-3)
Length = 478
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 37/103 (35%), Gaps = 27/103 (26%)
Query: 43 FSTHRMDKSIGSSPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDT 102
++T+R K S+ K R C E +E CC H +C+ DT
Sbjct: 176 WTTNRCQKMCPSTCGK----RACTENNE---------CC------HPECLGSCSAPDNDT 216
Query: 103 TCEICREQYNPGY---TAPPPLFRYGGNFRANWEISGRDLHHN 142
C CR Y G PP +R+ G W RD N
Sbjct: 217 ACVACRHYYYAGVCVPACPPNTYRFEG-----WRCVDRDFCAN 254
>pdb|2DKT|A Chain A, Solution Structure Of The Chy Zinc Finger Domain Of The
Ring Finger And Chy Zinc Finger Domain-Containing
Protein 1 From Mus Musculus
Length = 143
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 58 KLVECRICHEEDEDSNM------EIPCSCCGSLKYAHRKC 91
KL CR+CH+ +ED + E+ C C L++A + C
Sbjct: 35 KLYTCRLCHDTNEDHQLDRFKVKEVQCINCEKLQHAQQTC 74
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
0.321 0.135 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,399,019
Number of Sequences: 62578
Number of extensions: 271143
Number of successful extensions: 706
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 695
Number of HSP's gapped (non-prelim): 33
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)