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= 046030
(331 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N0R|A Chain A, 4ank: A Designed Ankyrin Repeat Protein With Four
Identical Consensus Repeats
Length = 126
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 25 NSPQPLQ-NAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGF 83
N PL A +G+ + + +L+ + D V+ D+ R+ H+A + H E KL+ E G
Sbjct: 1 NGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 59
Query: 84 SKELIATYVDKSGNNLLHLAAQ 105
DK+G LHLAA+
Sbjct: 60 D----VNAKDKNGRTPLHLAAR 77
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 25 NSPQPLQ-NAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGF 83
N PL A +G+ + + +L+ + D V+ D+ R+ H+A + H E KL+ E G
Sbjct: 34 NGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 92
Query: 84 SKELIATYVDKSGNNLLHLAAQ 105
DK+G LHLAA+
Sbjct: 93 D----VNAKDKNGRTPLHLAAR 110
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 25 NSPQPLQ-NAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIG 82
N PL A +G+ + + +L+ + D V+ D+ R+ H+A + H E KL+ E G
Sbjct: 67 NGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAG 124
>pdb|1N0Q|A Chain A, 3ank: A Designed Ankyrin Repeat Protein With Three
Identical Consensus Repeats
pdb|1N0Q|B Chain B, 3ank: A Designed Ankyrin Repeat Protein With Three
Identical Consensus Repeats
Length = 93
Score = 36.2 bits (82), Expect = 0.025, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 25 NSPQPLQ-NAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGF 83
N PL A +G+ + + +L+ + D V+ D+ R+ H+A + H E KL+ E G
Sbjct: 1 NGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 59
Query: 84 SKELIATYVDKSGNNLLHLAAQ 105
DK+G LHLAA+
Sbjct: 60 D----VNAKDKNGRTPLHLAAR 77
Score = 29.3 bits (64), Expect = 3.1, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 25 NSPQPLQ-NAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIG 82
N PL A +G+ + + +L+ + D V+ D+ R+ H+A + H E KL+ E G
Sbjct: 34 NGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAG 91
>pdb|4HQD|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or265.
pdb|4HQD|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or265
Length = 169
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 57/144 (39%), Gaps = 30/144 (20%)
Query: 33 AHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGFSKELIATYV 92
A G+ + + +LI D V+ D + R+ H A H E KL+ SK
Sbjct: 45 AKEGHKEIVKLLISKGAD-VNAKDSDGRTPLHYAAKEGHKEIVKLL----ISKGADVNAK 99
Query: 93 DKSGNNLLHLAAQYSNPKPISKVPGAALEMQRELITFKEVETIVKPSFKEMKNNDGKTPW 152
D G LH AA+ E +E++ I K + ++DG+TP
Sbjct: 100 DSDGRTPLHYAAK---------------EGHKEIVKL----LISKGADVNTSDSDGRTPL 140
Query: 153 ELFTAEHKT-----LLEEAENWMK 171
+L EH LLE+ W++
Sbjct: 141 DLAR-EHGNEEIVKLLEKQGGWLE 163
>pdb|4GMR|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or266.
pdb|4GMR|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or266
Length = 169
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 29/125 (23%), Positives = 51/125 (40%), Gaps = 24/125 (19%)
Query: 30 LQNAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGFSKELIA 89
++ A +GN + L+ + D V+ D + ++ H+A + H E KL+ G
Sbjct: 9 IEAAENGNKDRVKDLLENGAD-VNASDSDGKTPLHLAAENGHKEVVKLLLSQGAD----P 63
Query: 90 TYVDKSGNNLLHLAAQYSNPKPISKVPGAALEMQRELITFKEVETIVKPSFKEMKNNDGK 149
D G LHLAA+ +E++ + + + K++DGK
Sbjct: 64 NAKDSDGKTPLHLAAENG---------------HKEVVKL----LLSQGADPNAKDSDGK 104
Query: 150 TPWEL 154
TP L
Sbjct: 105 TPLHL 109
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 31/144 (21%), Positives = 58/144 (40%), Gaps = 30/144 (20%)
Query: 33 AHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGFSKELIATYV 92
A +G+ + + +L+ D + D + ++ H+A + H E KL+ G
Sbjct: 45 AENGHKEVVKLLLSQGAD-PNAKDSDGKTPLHLAAENGHKEVVKLLLSQGAD----PNAK 99
Query: 93 DKSGNNLLHLAAQYSNPKPISKVPGAALEMQRELITFKEVETIVKPSFKEMKNNDGKTPW 152
D G LHLAA+ +E++ + + + ++DG+TP
Sbjct: 100 DSDGKTPLHLAAENG---------------HKEVVKL----LLSQGADPNTSDSDGRTPL 140
Query: 153 ELFTAEHKT-----LLEEAENWMK 171
+L EH LLE+ W++
Sbjct: 141 DLAR-EHGNEEVVKLLEKQGGWLE 163
>pdb|4GPM|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or264.
pdb|4GPM|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or264
Length = 169
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 42/173 (24%), Positives = 66/173 (38%), Gaps = 34/173 (19%)
Query: 9 GKTYQVRVSIPDGDAANSPQ-----PLQNAHSGNFKFLAVLIRSYPDLVHELDEEDRSIF 63
G +V+ I +G N+ PL +A K + L+ S V+ D + R+
Sbjct: 15 GNKDRVKDLIENGADVNASDSDGRTPLHHAAENGHKEVVKLLISKGADVNAKDSDGRTPL 74
Query: 64 HIAVMHRHAETFKLIYEIGFSKELIATYVDKSGNNLLHLAAQYSNPKPISKVPGAALEMQ 123
H A + H E KL+ SK D G LH AA+
Sbjct: 75 HHAAENGHKEVVKLL----ISKGADVNAKDSDGRTPLHHAAENG---------------H 115
Query: 124 RELITFKEVETIVKPSFKEMKNNDGKTPWELFTAEHKT-----LLEEAENWMK 171
+E++ I K + ++DG+TP +L EH LLE+ W++
Sbjct: 116 KEVVKL----LISKGADVNTSDSDGRTPLDLAR-EHGNEEVVKLLEKQGGWLE 163
>pdb|1MJ0|A Chain A, Sank E3_5: An Artificial Ankyrin Repeat Protein
Length = 166
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 51/105 (48%), Gaps = 11/105 (10%)
Query: 9 GKTYQVRVSIPDGDAANSPQ-----PLQNAHS-GNFKFLAVLIRSYPDLVHELDEEDRSI 62
G+ +VR+ + +G N+ PL A S G+ + + VL+++ D V+ D +
Sbjct: 25 GQDDEVRILMANGADVNATDNDGYTPLHLAASNGHLEIVEVLLKNGAD-VNASDLTGITP 83
Query: 63 FHIAVMHRHAETFKLIYEIGFSKELIATYVDKSGNNLLHLAAQYS 107
H+A H E +++ + G + Y D G+ LHLAA+Y
Sbjct: 84 LHLAAATGHLEIVEVLLKHGAD---VNAY-DNDGHTPLHLAAKYG 124
>pdb|4HB5|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or267.
pdb|4HB5|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or267
Length = 169
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 59/158 (37%), Gaps = 29/158 (18%)
Query: 19 PDGDAANSPQPLQNAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLI 78
P+ ++ PL A K + L+ S + D + R+ H A + H E KL+
Sbjct: 30 PNASDSDGRTPLHYAAENGHKEIVKLLLSKGADPNAKDSDGRTPLHYAAENGHKEIVKLL 89
Query: 79 YEIGFSKELIATYVDKSGNNLLHLAAQYSNPKPISKVPGAALEMQRELITFKEVETIVKP 138
SK D G LH AA+ +E++ + K
Sbjct: 90 ----LSKGADPNAKDSDGRTPLHYAAENG---------------HKEIVKL----LLSKG 126
Query: 139 SFKEMKNNDGKTPWELFTAEHKT-----LLEEAENWMK 171
+ ++DG+TP +L EH LLE+ W++
Sbjct: 127 ADPNTSDSDGRTPLDLAR-EHGNEEIVKLLEKQGGWLE 163
>pdb|4F6R|D Chain D, Tubulin:stathmin-Like Domain Complex
Length = 169
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 30 LQNAHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGFSKELIA 89
L+ A +G + +L+ + D+ E D+ ++ H+A + H E +++ + G
Sbjct: 19 LEAARAGQDDEVRILMANGADVNAE-DDSGKTPLHLAAIKGHLEIVEVLLKHGAD----V 73
Query: 90 TYVDKSGNNLLHLAAQYS 107
DK G+ LHLAA Y
Sbjct: 74 NAADKMGDTPLHLAALYG 91
>pdb|2FH5|A Chain A, The Structure Of The Mammalian Srp Receptor
pdb|2GO5|1 Chain 1, Structure Of Signal Recognition Particle Receptor (Sr)
In Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
Length = 185
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 65 IAVMHRHAETFKLIYEIGFSKELIATYVDK 94
+ + ++ F+L++ +GF K L TYVDK
Sbjct: 61 LTLKYKLDNQFELVFVVGFQKILTLTYVDK 90
>pdb|1UOH|A Chain A, Human Gankyrin
pdb|1TR4|A Chain A, Solution Structure Of Human Oncogenic Protein Gankyrin
Length = 226
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 33 AHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGFSKELIATYV 92
A+SG + L I + L D++ R+ H A H E + + ++G
Sbjct: 14 AYSGKLEELKESILADKSLATRTDQDSRTALHWACSAGHTEIVEFLLQLGVP----VNDK 69
Query: 93 DKSGNNLLHLAAQYSNPKPISKVPGAALEM 122
D +G + LH+AA + + + G ++
Sbjct: 70 DDAGWSPLHIAASAGRDEIVKALLGKGAQV 99
>pdb|1QYM|A Chain A, X-Ray Structure Of Human Gankyrin
Length = 227
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 33 AHSGNFKFLAVLIRSYPDLVHELDEEDRSIFHIAVMHRHAETFKLIYEIGFSKELIATYV 92
A+SG + L I + L D++ R+ H A H E + + ++G
Sbjct: 15 AYSGKLEELKESILADKSLATRTDQDSRTALHWACSAGHTEIVEFLLQLGVP----VNDK 70
Query: 93 DKSGNNLLHLAAQYSNPKPISKVPGAALEM 122
D +G + LH+AA + + + G ++
Sbjct: 71 DDAGWSPLHIAASAGRDEIVKALLGKGAQV 100
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
0.323 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,811,226
Number of Sequences: 62578
Number of extensions: 329189
Number of successful extensions: 707
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 693
Number of HSP's gapped (non-prelim): 20
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)