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= psy13192
(401 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PQV|A Chain A, Cyclase Homolog
pdb|3PQV|B Chain B, Cyclase Homolog
pdb|3PQV|C Chain C, Cyclase Homolog
pdb|3PQV|D Chain D, Cyclase Homolog
Length = 365
Score = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 102/299 (34%), Positives = 171/299 (57%), Gaps = 9/299 (3%)
Query: 16 EYEVNLLRLIDKLTNGTTLEVNETGTTLVFQPGILVGGLIQHECCKERGIGYYLEVCLAL 75
+YEV+ LRL++ +TNG+++E++ TGTT++F+PGI+ GG H+C + +GY+ E L L
Sbjct: 47 DYEVSFLRLMEAVTNGSSIEISYTGTTVIFRPGIITGGSYTHQCPNSKPVGYFAEPMLYL 106
Query: 76 APFCKKGLQIVMRGVTNNQKDPSVDSFKAGGLPVLKQFLVVDPGIELIIKKRGMEPEGGG 135
APF KK I+ RG+T++ D +D+ K G +P++++F V + + + KRG P GGG
Sbjct: 107 APFSKKKFSILFRGITSSHNDAGIDAIKWGLMPIMEKFGVRECALHTL--KRGSPPLGGG 164
Query: 136 EIYFNC-PIIKSIKPVQSKDMGKIKRIRGTVFALRVSPAIANRIVDTAKGILLSYLPDVY 194
E++ +I + + D I IRG ++ RVSP++ NR++D AK +L S +V
Sbjct: 165 EVHLVVDSLIAQPITMHALDKTMISSIRGVSYSTRVSPSLVNRMIDGAKKVLKSASCEVN 224
Query: 195 LSVDHCXXXXXXXXXXXXXXIYAESSTGVVLTADAVSPPPPATRTVPETLGEQLAYNLLE 254
++ D + AE+ G + ++A+ VPE +G +AY+LLE
Sbjct: 225 ITADVWRGENSGKSPGWGLTLVAENKQGWRIFSEAIGDAG----DVPEDIGASVAYHLLE 280
Query: 255 EISRGGMVDSSFQSLGCLYMALHQKDVSQLLIGP--LSPYTVQFLRHLKQFFGLKFKLE 311
EIS+ G+V + L LYM + ++D+ +L I + V LR +K+ FG + L+
Sbjct: 281 EISKSGVVGRNQLPLTILYMIIGKEDIGRLRITKDQIDERFVWLLRDIKKVFGTEILLK 339
>pdb|3KGD|A Chain A, Crystal Structure Of E. Coli Rna 3' Cyclase
pdb|3KGD|B Chain B, Crystal Structure Of E. Coli Rna 3' Cyclase
pdb|3KGD|C Chain C, Crystal Structure Of E. Coli Rna 3' Cyclase
pdb|3KGD|D Chain D, Crystal Structure Of E. Coli Rna 3' Cyclase
Length = 358
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 64/155 (41%), Gaps = 4/155 (2%)
Query: 31 GTTLEVNETGT-TLVFQPGILVGGLIQHECCKERGIGYYLEVCLALAPFCKKGLQIVMRG 89
G T+E E G+ L+F+PG + GG + L+ L F ++ + G
Sbjct: 83 GATVEGAELGSQRLLFRPGTVRGGDYRFAIGSAGSCTLVLQTVLPALWFADGPSRVEVSG 142
Query: 90 VTNNQKDPSVDSFKAGGLPVLKQFLVVDPGIELIIKKRGMEPEGGGEIYFNCPIIKSIKP 149
T+N P D + P+L + + + + + G P GGG + + S
Sbjct: 143 GTDNPSAPPADFIRRVLEPLLAKIGIHQ---QTTLLRHGFYPAGGGVVATEVSPVASFNT 199
Query: 150 VQSKDMGKIKRIRGTVFALRVSPAIANRIVDTAKG 184
+Q + G I ++RG V V +A R + T G
Sbjct: 200 LQLGERGNIVQMRGEVLLAGVPRHVAEREIATLAG 234
>pdb|1QMH|A Chain A, Crystal Structure Of Rna 3'-Terminal Phosphate Cyclase, An
Ubiquitous Enzyme With Unusual Topology
pdb|1QMH|B Chain B, Crystal Structure Of Rna 3'-Terminal Phosphate Cyclase, An
Ubiquitous Enzyme With Unusual Topology
Length = 347
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 64/155 (41%), Gaps = 4/155 (2%)
Query: 31 GTTLEVNETGT-TLVFQPGILVGGLIQHECCKERGIGYYLEVCLALAPFCKKGLQIVMRG 89
G T+E E G+ L+F+PG + GG + L+ L F ++ + G
Sbjct: 64 GATVEGAELGSQRLLFRPGTVRGGDYRFAIGSAGSCTLVLQTVLPALWFADGPSRVEVSG 123
Query: 90 VTNNQKDPSVDSFKAGGLPVLKQFLVVDPGIELIIKKRGMEPEGGGEIYFNCPIIKSIKP 149
T+N P D + P+L + + + + + G P GGG + + S
Sbjct: 124 GTDNPSAPPADFIRRVLEPLLAKIGIHQ---QTTLLRHGFYPAGGGVVATEVSPVASFNT 180
Query: 150 VQSKDMGKIKRIRGTVFALRVSPAIANRIVDTAKG 184
+Q + G I ++RG V V +A R + T G
Sbjct: 181 LQLGERGNIVQMRGEVLLAGVPRHVAEREIATLAG 215
>pdb|3TUT|A Chain A, Crystal Structure Of Rtca.Atp Binary Complex
pdb|3TUX|A Chain A, Crystal Structure Of Rtca.Atp.Mn Ternary Complex
pdb|3TV1|A Chain A, Crystal Structure Of Rtca.Amp Product Complex
pdb|3TV1|B Chain B, Crystal Structure Of Rtca.Amp Product Complex
pdb|3TW3|A Chain A, Crystal Structure Of Rtca.Atp.Co Ternary Complex
Length = 358
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 64/155 (41%), Gaps = 4/155 (2%)
Query: 31 GTTLEVNETGT-TLVFQPGILVGGLIQHECCKERGIGYYLEVCLALAPFCKKGLQIVMRG 89
G T+E E G+ L+F+PG + GG + L+ L F ++ + G
Sbjct: 83 GATVEGAELGSQRLLFRPGTVRGGDYRFAIGSAGSCTLVLQTVLPALWFADGPSRVEVSG 142
Query: 90 VTNNQKDPSVDSFKAGGLPVLKQFLVVDPGIELIIKKRGMEPEGGGEIYFNCPIIKSIKP 149
T+N P D + P+L + + + + + G P GGG + + S
Sbjct: 143 GTDNPSAPPADFIRRVLEPLLAKIGIHQ---QTTLLRHGFYPAGGGVVATEVSPVASFNT 199
Query: 150 VQSKDMGKIKRIRGTVFALRVSPAIANRIVDTAKG 184
+Q + G I ++RG V V +A R + T G
Sbjct: 200 LQLGERGNIVQMRGEVLLAGVPRHVAEREIATLAG 234
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 0.140 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,435,030
Number of Sequences: 62578
Number of extensions: 461748
Number of successful extensions: 870
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 861
Number of HSP's gapped (non-prelim): 8
length of query: 401
length of database: 14,973,337
effective HSP length: 101
effective length of query: 300
effective length of database: 8,652,959
effective search space: 2595887700
effective search space used: 2595887700
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: 52 (24.6 bits)