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= 012126
(470 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 51/117 (43%)
Query: 182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRI 241
L FD+FK V+PN ++ R D +A+ + +M G+ P + SY
Sbjct: 86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP 145
Query: 242 LMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK 298
+ G CRK ++A ++ M+ VP+ LL K + YK L R++
Sbjct: 146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLR 202
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 68/160 (42%), Gaps = 12/160 (7%)
Query: 184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN-GDISIAYTLFNKMFERGVMPDVESYRIL 242
P+ +L + A K + + ++ C GD+ A L+++ GV Y +L
Sbjct: 8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL 67
Query: 243 MQGLCRKSQ----------VNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYK 292
+ +C ++ ++R D+ + M+ VP+ ++T K A+
Sbjct: 68 LY-VCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFD 126
Query: 293 LLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM 332
++ +MK G P + Y + GFCR+G A A +V M
Sbjct: 127 MVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 47/117 (40%)
Query: 182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRI 241
L FD+FK V+PN ++ R D A+ + G+ P + SY
Sbjct: 86 LSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGP 145
Query: 242 LMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK 298
+ G CRK ++A ++ + VP+ LL K + YK L R++
Sbjct: 146 ALFGFCRKGDADKAYEVDAHXVESEVVPEEPELAALLKVSXDTKNADKVYKTLQRLR 202
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 52/124 (41%), Gaps = 11/124 (8%)
Query: 215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ----------VNRAVDLLEDMLN 264
GD+ A L+++ GV Y +L+ +C ++ ++R D+ + +
Sbjct: 40 GDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQXIV 98
Query: 265 KGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAID 324
VP+ ++T K A+ + + K G P + Y + GFCR+G A
Sbjct: 99 DKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADK 158
Query: 325 ACKV 328
A +V
Sbjct: 159 AYEV 162
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 3/92 (3%)
Query: 204 YNIMMRAFCFNGDI-SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD-LLED 261
YN +M + G + Y LF + + G+ PD+ SY +Q + R+ Q ++ LE
Sbjct: 168 YNAVMLGWARQGAFKELVYVLF-MVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226
Query: 262 MLNKGFVPDTLSYTTLLNSLCRKKKLREAYKL 293
M +G L LL+ R L+ +K+
Sbjct: 227 MSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSY 344
YN V+LG+ R+G + VL + G P+L+SY
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY 203
>pdb|3E3B|X Chain X, Crystal Structure Of Catalytic Subunit Of Human Protein
Kinase Ck2alpha Prime With A Potent Indazole-Derivative
Inhibitor
Length = 339
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 69 IASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILIT 120
+ ++ + L ++E +DY + P++ N L+ KLGR KY + + I IT
Sbjct: 17 VYAEVNSLRSREYWDYEAHVPSW--GNQDDYQLVRKLGRGKYSEVFEAINIT 66
>pdb|3OFM|A Chain A, Structure Of A Human Ck2alpha Prime, The Paralog Isoform
Of The Catalytic Subunit Of Protein Kinase Ck2 From Homo
Sapiens
Length = 350
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 69 IASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILIT 120
+ ++ + L ++E +DY + P++ N L+ KLGR KY + + I IT
Sbjct: 12 VYAEVNSLRSREYWDYEAHVPSW--GNQDDYQLVRKLGRGKYSEVFEAINIT 61
>pdb|1R5P|A Chain A, Crystal Structure Analysis Of Kaib From Pcc7120
pdb|1R5P|B Chain B, Crystal Structure Analysis Of Kaib From Pcc7120
Length = 108
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 134 TYLIKIYAESNLPD--RALKTFRSMLE 158
TY++K+Y N P+ RALKT +++LE
Sbjct: 7 TYVLKLYVAGNTPNSVRALKTLKNILE 33
>pdb|2QKE|A Chain A, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|B Chain B, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|C Chain C, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|D Chain D, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|E Chain E, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
pdb|2QKE|F Chain F, Wild Type Crystal Structure Of Full Length Circadian Clock
Protein Kaib From Thermosynechococcus Elongatus Bp-1
Length = 108
Score = 28.5 bits (62), Expect = 7.9, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 128 VTPSLFTYLIKIYAESNLPD--RALKTFRSMLE 158
+ P TY++K+Y N P+ RALKT ++LE
Sbjct: 1 MAPLRKTYVLKLYVAGNTPNSVRALKTLNNILE 33
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
0.324 0.140 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,759,410
Number of Sequences: 62578
Number of extensions: 506431
Number of successful extensions: 1320
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1306
Number of HSP's gapped (non-prelim): 17
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (25.0 bits)