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= psy12259
(848 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OTB|A Chain A, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1) - Dgtp Complex
pdb|3OTB|B Chain B, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1) - Dgtp Complex
pdb|3OTC|A Chain A, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1)- Native Ii
pdb|3OTC|B Chain B, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1)- Native Ii
pdb|3OTD|A Chain A, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1)- Nai Derivative
pdb|3OTD|B Chain B, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1)- Nai Derivative
pdb|3OTE|A Chain A, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1)- Native I
pdb|3OTE|B Chain B, Crystal Structure Of Human Trnahis Guanylyltransferase
(Thg1)- Native I
Length = 269
Score = 269 bits (687), Expect = 5e-72, Method: Compositional matrix adjust.
Identities = 129/257 (50%), Positives = 168/257 (65%), Gaps = 16/257 (6%)
Query: 601 EFESHDRCLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIEEFNDICC 660
+FE+ D CL +C++VVR+DG+ FH+F E H F KPND L LM+K A V+EE DI
Sbjct: 11 DFEADDTCLAHCWVVVRLDGRNFHRFAEKHNFAKPNDSRALQLMTKCAQTVMEELEDIVI 70
Query: 661 AYGQSDEYSFIFSRNTNIYNRRADKIASVVCSLFTSSYGFYW-DKFCCKKLKYPPAFDSR 719
AYGQSDEYSF+F R TN + RRA K + V S F SSY FYW D F + L YPP FD R
Sbjct: 71 AYGQSDEYSFVFKRKTNWFKRRASKFMTHVASQFASSYVFYWRDYFEDQPLLYPPGFDGR 130
Query: 720 VILYPTVRNLRDYLSWRQADAHINNLYNTAFWGLVQKCGHSKQEAEKILRGTVSSEKHEL 779
V++YP+ + L+DYLSWRQAD HINNLYNT FW L+Q+ G + +A+ L+GT++++K+E+
Sbjct: 131 VVVYPSNQTLKDYLSWRQADCHINNLYNTVFWALIQQSGLTPVQAQGRLQGTLAADKNEI 190
Query: 780 LFKDCKINYNNECELYKKGTIIIKSLVPSSTGSPV---------------CNTVYVPLNC 824
LF + INYNNE +Y+KGT++I V + T VPL+C
Sbjct: 191 LFSEFNINYNNELPMYRKGTVLIWQKVDEVMTKEIKLPTEMEGKKMAVTRTRTKPVPLHC 250
Query: 825 DIINDKFWNENPHILDS 841
DII D FW E+P ILD
Sbjct: 251 DIIGDAFWKEHPEILDE 267
Score = 140 bits (352), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 65/116 (56%), Positives = 81/116 (69%), Gaps = 1/116 (0%)
Query: 441 LPKLYEFLHKKFNDICCAYGQSDEYSFIFSRNTNIYNRRADKIASVVCSLFTSSYGFYW- 499
+ K + + ++ DI AYGQSDEYSF+F R TN + RRA K + V S F SSY FYW
Sbjct: 54 MTKCAQTVMEELEDIVIAYGQSDEYSFVFKRKTNWFKRRASKFMTHVASQFASSYVFYWR 113
Query: 500 DKFCCKKLKYPPAFDSRVILYPTVRNLRDYLSWRQADAHINNLYNTAFWGLVQKCG 555
D F + L YPP FD RV++YP+ + L+DYLSWRQAD HINNLYNT FW L+Q+ G
Sbjct: 114 DYFEDQPLLYPPGFDGRVVVYPSNQTLKDYLSWRQADCHINNLYNTVFWALIQQSG 169
>pdb|1A4J|H Chain H, Diels Alder Catalytic Antibody Germline Precursor
pdb|1A4J|B Chain B, Diels Alder Catalytic Antibody Germline Precursor
pdb|1A4K|H Chain H, Diels Alder Catalytic Antibody With Transition State
Analogue
pdb|1A4K|B Chain B, Diels Alder Catalytic Antibody With Transition State
Analogue
Length = 219
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 28/68 (41%), Gaps = 15/68 (22%)
Query: 187 NLTSPDTVIYVCVQGERERVASVSISDLYKSRSKSTASSNIDESASHTANGNTASPPVAK 246
NL + DT Y CVQ ER R D + + + T SS +T P V
Sbjct: 85 NLKNEDTATYFCVQAERLR----RTFDYWGAGTTVTVSS-----------ASTKGPSVFP 129
Query: 247 LPPQHKST 254
L P KST
Sbjct: 130 LAPSSKST 137
>pdb|3FBT|A Chain A, Crystal Structure Of A Chorismate MutaseSHIKIMATE 5-
Dehydrogenase Fusion Protein From Clostridium
Acetobutylicum
pdb|3FBT|B Chain B, Crystal Structure Of A Chorismate MutaseSHIKIMATE 5-
Dehydrogenase Fusion Protein From Clostridium
Acetobutylicum
pdb|3FBT|C Chain C, Crystal Structure Of A Chorismate MutaseSHIKIMATE 5-
Dehydrogenase Fusion Protein From Clostridium
Acetobutylicum
pdb|3FBT|D Chain D, Crystal Structure Of A Chorismate MutaseSHIKIMATE 5-
Dehydrogenase Fusion Protein From Clostridium
Acetobutylicum
Length = 282
Score = 29.3 bits (64), Expect = 9.4, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 544 NTAFWGLV-QKCGHSKQEPLKQLVLHKIGKNSRYSGFD 580
NT+ +GL+ +K GHS + +L+ K+G Y+ F+
Sbjct: 4 NTSIYGLIGEKLGHSHSSYIHKLIFEKVGIKGIYNLFE 41
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 0.136 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,186,488
Number of Sequences: 62578
Number of extensions: 1120650
Number of successful extensions: 2397
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2391
Number of HSP's gapped (non-prelim): 8
length of query: 848
length of database: 14,973,337
effective HSP length: 107
effective length of query: 741
effective length of database: 8,277,491
effective search space: 6133620831
effective search space used: 6133620831
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: 56 (26.2 bits)