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= 015918
(398 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G8S|A Chain A, Methanococcus Jannaschii Fibrillarin Pre-Rrna Processing
Protein
Length = 230
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 5/78 (6%)
Query: 154 KVLIVFDDVNHPRQIEFLIGNLDWF-ASGSRILITARDKQALINCGVNKIY-QIKELVHV 211
KV ++++DV P Q E LI N WF G +I + + + +I+ + KE++
Sbjct: 143 KVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGMIAIKARSIDVTKDPKEIFKEQKEILEA 202
Query: 212 DALKLLNQC---AFGRDH 226
K++++ F +DH
Sbjct: 203 GGFKIVDEVDIEPFEKDH 220
>pdb|1FBN|A Chain A, Crystal Structure Of A Fibrillarin Homologue From
Methanococcus Jannaschii, A Hyperthermophile, At 1.6 A
Length = 230
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 154 KVLIVFDDVNHPRQIEFLIGNLDWF-ASGSRILITARDKQALINCGVNKIY-QIKELVHV 211
KV ++++DV P Q E LI N WF G I + + + +I+ + KE++
Sbjct: 143 KVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGXIAIKARSIDVTKDPKEIFKEQKEILEA 202
Query: 212 DALKLLNQC---AFGRDH 226
K++++ F +DH
Sbjct: 203 GGFKIVDEVDIEPFEKDH 220
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 48/98 (48%), Gaps = 20/98 (20%)
Query: 77 IWGIGGVGKTAIAGAFFSKISRRFEGSYFAH---NVREAEETGKLADLRKELLSTLLNDG 133
I+G+ G GKTA+ SK+ ++F G F H N R+ D +L+ LL
Sbjct: 50 IYGLTGTGKTAVVKFVLSKLHKKFLGK-FKHVYINTRQ-------IDTPYRVLADLLESL 101
Query: 134 NMNKFPNIGLNFQS--KRLTR------KKVLIVFDDVN 163
++ K P GL+ +RL + +V+IV D+++
Sbjct: 102 DV-KVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEID 138
>pdb|3A4Y|A Chain A, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|B Chain B, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|C Chain C, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|D Chain D, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 58/123 (47%), Gaps = 25/123 (20%)
Query: 180 SGSRILITARDKQALINCGVNKIYQIKELVHVDALKLLNQCAFGRDHPDASYIELTHEAI 239
+GS L+ A ++ L++CG ++Q KE + N FG D + + LTH A+
Sbjct: 13 TGSAHLLLAGGRRVLLDCG---MFQGKE-------EARNHAPFGFDPKEVDAVLLTHAAL 62
Query: 240 KYAQGVPIALKILGRFLFRK--RKEVWENAISKLEMVPQMEIQEVLKI---SYDGLDDKE 294
+ +P LFR+ R V+ + L M ++ +++ LK+ + G +D E
Sbjct: 63 DHVGRLPK--------LFREGYRGPVYATRATVLLM--EIVLEDALKVMDEPFFGPEDVE 112
Query: 295 KNI 297
+ +
Sbjct: 113 EAL 115
>pdb|2Q6T|A Chain A, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
pdb|2Q6T|B Chain B, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
pdb|2Q6T|C Chain C, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
pdb|2Q6T|D Chain D, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
Length = 444
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 25 ESKLIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLGVGLTMDTCKLGIWGI-GGV 83
E++ + E+V E E ++ F+ + ++ GV + +E+ L+G T+ L I +
Sbjct: 155 EARPMRELVHETFEHIEALFQNKGEVAGVRTGFKELDQLIG---TLGPGSLNIIAARPAM 211
Query: 84 GKTAIA 89
GKTA A
Sbjct: 212 GKTAFA 217
>pdb|4DT0|A Chain A, The Structure Of The Peripheral Stalk Subunit E From
Pyrococcus Horikoshii
Length = 208
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 42/86 (48%), Gaps = 19/86 (22%)
Query: 28 LIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLG-----VGLTMDTCKLGIWGIGG 82
L++E + E+ E+ E L + SRIEEI S LG +G T+DT +GG
Sbjct: 119 LLKEAIKELNEKKVRVMSNEKTLGLIASRIEEIKSELGDVSIELGETVDT-------MGG 171
Query: 83 V------GKTAIAGAFFSKISRRFEG 102
V G+ I F +++ RFEG
Sbjct: 172 VIVETEDGRIRIDNTFEARME-RFEG 196
>pdb|2DM9|A Chain A, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
pdb|2DM9|B Chain B, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
Length = 198
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 42/86 (48%), Gaps = 19/86 (22%)
Query: 28 LIEEIVSEVLERLDDTFETENKLVGVDSRIEEILSLLG-----VGLTMDTCKLGIWGIGG 82
L++E + E+ E+ E L + SRIEEI S LG +G T+DT +GG
Sbjct: 109 LLKEAIKELNEKKVRVMSNEKTLGLIASRIEEIKSELGDVSIELGETVDT-------MGG 161
Query: 83 V------GKTAIAGAFFSKISRRFEG 102
V G+ I F +++ RFEG
Sbjct: 162 VIVETEDGRIRIDNTFEARME-RFEG 186
>pdb|3TWO|A Chain A, The Crystal Structure Of Cad From Helicobacter Pylori
Complexed With Nadp(H)
pdb|3TWO|B Chain B, The Crystal Structure Of Cad From Helicobacter Pylori
Complexed With Nadp(H)
Length = 348
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 16/81 (19%)
Query: 47 ENKLVGVD--SRIEEILSLLGVGLTMDT----------CKLGIWGIGGVGKTAIAGAFFS 94
EN ++ VD + +E++ LL G+T + K+G+ G GG+G A+ A
Sbjct: 140 ENYVISVDKNAPLEKVAPLLCAGITTYSPLKFSKVTKGTKVGVAGFGGLGSMAVKYA--- 196
Query: 95 KISRRFEGSYFAHNVREAEET 115
++ E S FA N + ++
Sbjct: 197 -VAMGAEVSVFARNEHKKQDA 216
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 0.138 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,340,588
Number of Sequences: 62578
Number of extensions: 456935
Number of successful extensions: 1308
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1294
Number of HSP's gapped (non-prelim): 34
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
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: 52 (24.6 bits)