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= 029802
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SQW|A Chain A, Crystal Structure Of Kd93, A Novel Protein Expressed In
The Human Pro
Length = 188
Score = 231 bits (589), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 112/182 (61%), Positives = 135/182 (74%), Gaps = 8/182 (4%)
Query: 1 MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
MRPL E ET +FEK+ K+ G NL+ +V+ P G YCFRLH +RVYYVSE ++
Sbjct: 1 MRPLTEEETRVMFEKIAKYIGENLQLLVDRPD--------GTYCFRLHNDRVYYVSEKIM 52
Query: 61 KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
K A NI+ KLVSLGTC GKFT KF L + AL +A A++KVWIKP +E SFLYGNH
Sbjct: 53 KLAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNH 112
Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
VLK GLGRIT++ + GVVVYSM+D+PLGFGVAAKS QDCRK+DP IVV HQ+DIGEY
Sbjct: 113 VLKSGLGRITENTSQYQGVVVYSMADIPLGFGVAAKSTQDCRKVDPMAIVVFHQADIGEY 172
Query: 181 LR 182
+R
Sbjct: 173 VR 174
>pdb|1T5Y|A Chain A, Crystal Structure Of Northeast Structural Genomics
Consortium Target Hr2118: A Human Homolog Of
Saccharomyces Cerevisiae Nip7p
Length = 190
Score = 228 bits (582), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 112/186 (60%), Positives = 134/186 (72%), Gaps = 8/186 (4%)
Query: 2 RPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVK 61
RPL E ET FEK+ K+ G NL+ +V+ P G YCFRLH +RVYYVSE + K
Sbjct: 12 RPLTEEETRVXFEKIAKYIGENLQLLVDRPD--------GTYCFRLHNDRVYYVSEKIXK 63
Query: 62 RATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHV 121
A NI+ KLVSLGTC GKFT KF L + AL +A A++KVWIKP +E SFLYGNHV
Sbjct: 64 LAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNHV 123
Query: 122 LKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYL 181
LK GLGRIT++ + GVVVYS +D+PLGFGVAAKS QDCRK+DP IVV HQ+DIGEY+
Sbjct: 124 LKSGLGRITENTSQYQGVVVYSXADIPLGFGVAAKSTQDCRKVDPXAIVVFHQADIGEYV 183
Query: 182 RMEDEL 187
R E+ L
Sbjct: 184 RHEETL 189
>pdb|2AUS|C Chain C, Crystal Structure Of The Archaeal Box HACA SRNP NOP10-Cbf5
Complex
pdb|2AUS|A Chain A, Crystal Structure Of The Archaeal Box HACA SRNP NOP10-Cbf5
Complex
Length = 334
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 104 KVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDC 161
K+WIK ++ + +G ++ G+ ++ I GD V + ++ D + G A S Q+
Sbjct: 252 KIWIKDSAVAAVAHGANLTVPGIVKLNAGIKKGDLVAIMTLKDELVALGKAMMSTQEM 309
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 17/79 (21%)
Query: 47 LHKNRVYYVSESLVKRATNIARPKLVSLG---------TCIGKFTHGGKFHLTIQALSLV 97
L NR+ Y+S S ++R N+ L S G + +G H L+ LS +
Sbjct: 59 LSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEH---LDLSYNYLSNL 115
Query: 98 AANARHKVWIKPTSEMSFL 116
+++ W KP S ++FL
Sbjct: 116 SSS-----WFKPLSSLTFL 129
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 17/79 (21%)
Query: 47 LHKNRVYYVSESLVKRATNIARPKLVSLG---------TCIGKFTHGGKFHLTIQALSLV 97
L NR+ Y+S S ++R N+ L S G + +G H L+ LS +
Sbjct: 33 LSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEH---LDLSYNYLSNL 89
Query: 98 AANARHKVWIKPTSEMSFL 116
+++ W KP S ++FL
Sbjct: 90 SSS-----WFKPLSSLTFL 103
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 3/83 (3%)
Query: 81 FTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVV 140
F+ GG +L SLV A + +W M + G + G LG + D + PG
Sbjct: 105 FSEGGLDYLGNP--SLVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFD 162
Query: 141 VYSMSDVPLGFG-VAAKSMQDCR 162
++D P F + K +++ R
Sbjct: 163 PLGLADDPEAFAELKVKELKNGR 185
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution
pdb|2BHW|B Chain B, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution
pdb|2BHW|C Chain C, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution
Length = 232
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 3/83 (3%)
Query: 81 FTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVV 140
F+ GG +L SLV A + +W M + G + G LG + D + PG
Sbjct: 105 FSEGGLDYLGNP--SLVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFD 162
Query: 141 VYSMSDVPLGFG-VAAKSMQDCR 162
++D P F + K +++ R
Sbjct: 163 PLGLADDPEAFAELKVKELKNGR 185
>pdb|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|B Chain B, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|C Chain C, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|D Chain D, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|E Chain E, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|F Chain F, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|G Chain G, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|H Chain H, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|I Chain I, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|J Chain J, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
Length = 232
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 36/95 (37%), Gaps = 4/95 (4%)
Query: 57 ESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFL 116
E L + G+ I F+ GG +L SLV A + +W M +
Sbjct: 83 ELLARNGVKFGEAVWFKAGSQI--FSEGGLDYLGNP--SLVHAQSILAIWACQVILMGAV 138
Query: 117 YGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGF 151
G + G LG + D + PG ++D P F
Sbjct: 139 EGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAF 173
>pdb|2AS0|A Chain A, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna
Methyltransferase
pdb|2AS0|B Chain B, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna
Methyltransferase
Length = 396
Score = 26.6 bits (57), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 18/34 (52%)
Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVA 154
V K G+ R+ I PGD V VY+ LG G A
Sbjct: 21 VFKKGVVRVEGDIKPGDIVEVYTRGGKFLGKGFA 54
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
0.320 0.138 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,831,413
Number of Sequences: 62578
Number of extensions: 226545
Number of successful extensions: 496
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 487
Number of HSP's gapped (non-prelim): 10
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)