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= 011463
(485 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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/133 (21%), Positives = 56/133 (42%), Gaps = 11/133 (8%)
Query: 165 LCKNSGTMDAAFKIFREMPNRGCTPDSYTYGTLINGLCRLGK----------IYEAKELF 214
+C G + A +++ E G Y Y L+ +C L + + ++F
Sbjct: 35 MCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIF 93
Query: 215 KEMETKACSPTVVTYTSLINGLCQSKSVEEAMRLFEEMRSKGVEPNVFTYSSLMDGLCKG 274
K+M P T+T+ E A + ++M++ G++P + +Y + G C+
Sbjct: 94 KQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRK 153
Query: 275 GCSSQAMELLQMM 287
G + +A E+ M
Sbjct: 154 GDADKAYEVDAHM 166
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 30/135 (22%), Positives = 56/135 (41%), Gaps = 23/135 (17%)
Query: 308 KEGKLQEAVEILDRMKLQGLKPDAGLYGKIISCFCDIGKYQEAA-------------NFL 354
K+G + EA+ + D + G++ Y ++ C + EAA +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYN-VLLYVCSLA---EAATESSPNPGLSRGFDIF 93
Query: 355 DEMVLGGITPNRLTWSLHIRIHNTVVQGLCKTDPNRAFQVYLSMRNRSISVDSLTYSSLI 414
+M++ + PN T++ R+ + K DP AF + M+ I +Y +
Sbjct: 94 KQMIVDKVVPNEATFTNGARL------AVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPAL 147
Query: 415 TCFCKKGDIHKSARI 429
FC+KGD K+ +
Sbjct: 148 FGFCRKGDADKAYEV 162
>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 = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 25/128 (19%), Positives = 51/128 (39%), Gaps = 11/128 (8%)
Query: 166 CKNSGTMDAAFKIFREMPNRGCTPDSYTYGTLINGLCRLGK----------IYEAKELFK 215
C G + A +++ E G Y Y L+ +C L + + ++FK
Sbjct: 36 CSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFK 94
Query: 216 EMETKACSPTVVTYTSLINGLCQSKSVEEAMRLFEEMRSKGVEPNVFTYSSLMDGLCKGG 275
+ P T+T+ E A ++ ++ G++P + +Y + G C+ G
Sbjct: 95 QXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKG 154
Query: 276 CSSQAMEL 283
+ +A E+
Sbjct: 155 DADKAYEV 162
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 29/140 (20%), Positives = 55/140 (39%), Gaps = 23/140 (16%)
Query: 303 LNGLCKEGKLQEAVEILDRMKLQGLKPDAGLYGKIISCFCDIGKYQEAA----------- 351
L+ K+G + EA+ + D + G++ Y ++ C + EAA
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYN-VLLYVCSLA---EAATESSPNPGLSR 88
Query: 352 --NFLDEMVLGGITPNRLTWSLHIRIHNTVVQGLCKTDPNRAFQVYLSMRNRSISVDSLT 409
+ + ++ + PN T++ R+ + K DP AF + I +
Sbjct: 89 GFDIFKQXIVDKVVPNEATFTNGARL------AVAKDDPEXAFDXVKQXKAFGIQPRLRS 142
Query: 410 YSSLITCFCKKGDIHKSARI 429
Y + FC+KGD K+ +
Sbjct: 143 YGPALFGFCRKGDADKAYEV 162
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 40/200 (20%), Positives = 78/200 (39%), Gaps = 19/200 (9%)
Query: 68 PAEDLLDRVNKEKCDITEDIFL----SICRGYGRVHRPLDAMRVFDKMKEFGCEPTPKSY 123
P+E+L + K+ + + L C G V L+A+R++D+ + G + + Y
Sbjct: 8 PSENLSRKAKKKAIQQSPEALLKQKLDXCSKKGDV---LEALRLYDEARRNGVQLSQYHY 64
Query: 124 ITVLAI--LVEENQ-------LKLAFRFYRHMREIGIQPCVASL-NVLIKALCKNSGTMD 173
+L + L E L F ++ + P A+ N A+ K+ +
Sbjct: 65 NVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDD--PE 122
Query: 174 AAFKIFREMPNRGCTPDSYTYGTLINGLCRLGKIYEAKELFKEMETKACSPTVVTYTSLI 233
AF ++ G P +YG + G CR G +A E+ P +L+
Sbjct: 123 XAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHXVESEVVPEEPELAALL 182
Query: 234 NGLCQSKSVEEAMRLFEEMR 253
+K+ ++ + + +R
Sbjct: 183 KVSXDTKNADKVYKTLQRLR 202
>pdb|3CEQ|A Chain A, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
pdb|3CEQ|B Chain B, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
Length = 283
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 44/96 (45%), Gaps = 14/96 (14%)
Query: 271 LCKGGCSSQAMELLQMMISKRHRPNIVTYSTLLNGLCKEGKLQEAVEILDRMKLQ----G 326
LCK +A+E+ + ++ K H P++ + L LC+ E VE R L+
Sbjct: 107 LCK-----RALEIREKVLGKFH-PDVAKQLSNLALLCQNQGKAEEVEYYYRRALEIYATR 160
Query: 327 LKPD----AGLYGKIISCFCDIGKYQEAANFLDEMV 358
L PD A + SC+ GKYQ+A E++
Sbjct: 161 LGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEIL 196
>pdb|3EDT|B Chain B, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|D Chain D, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|F Chain F, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|H Chain H, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
Length = 283
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 43/96 (44%), Gaps = 14/96 (14%)
Query: 271 LCKGGCSSQAMELLQMMISKRHRPNIVTYSTLLNGLCKEGKLQEAVEILDRMKLQ----G 326
LCK +A+E+ + ++ K H P++ L LC+ E VE R L+
Sbjct: 107 LCK-----RALEIREKVLGKFH-PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATR 160
Query: 327 LKPD----AGLYGKIISCFCDIGKYQEAANFLDEMV 358
L PD A + SC+ GKYQ+A E++
Sbjct: 161 LGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEIL 196
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 280 AMELLQMMISKRHRPNIVT---YSTLLNGLCKEGKLQEAVEILDRMKLQGLKPDAGLYGK 336
A LL + +R + ++T Y+ ++ G ++G +E V +L +K GL PD Y
Sbjct: 146 AHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA 205
Query: 337 IISCF 341
+ C
Sbjct: 206 ALQCM 210
>pdb|1RFZ|A Chain A, Structure Of Protein Of Unknown Function From Bacillus
Stearothermophilus
pdb|1RFZ|B Chain B, Structure Of Protein Of Unknown Function From Bacillus
Stearothermophilus
pdb|1RFZ|C Chain C, Structure Of Protein Of Unknown Function From Bacillus
Stearothermophilus
pdb|1RFZ|D Chain D, Structure Of Protein Of Unknown Function From Bacillus
Stearothermophilus
Length = 168
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 14/72 (19%)
Query: 281 MELLQMMISKRHRPNIVTYSTLLNGLCKEGKLQEAVEILDRMKLQGLKPDAGLYG----- 335
+E + +ISKR N + L+ L ++G+L E ++ + ++ D GLYG
Sbjct: 51 IENVNRVISKREVQNAILTGIQLDKLAEDGRLDEPLQSI-------IRRDEGLYGVDEIL 103
Query: 336 --KIISCFCDIG 345
I++ + IG
Sbjct: 104 ALSIVNVYGSIG 115
>pdb|3VC0|A Chain A, Crystal Structure Of Taipoxin Beta Subunit Isoform 1
Length = 118
Score = 28.5 bits (62), Expect = 8.9, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 184 NRGCTPDSYTYGTLINGLCRLGKIYEAKELFKEMETKACSPTVVTYT---SLINGLCQSK 240
N GC GT ++ L R ++++ E + E E C P++ TYT + C SK
Sbjct: 24 NYGCYCGKGGSGTPVDDLDRCCQVHD--ECYAEAEKHGCYPSLTTYTWECRQVGPYCNSK 81
Query: 241 S 241
+
Sbjct: 82 T 82
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
0.322 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,255,974
Number of Sequences: 62578
Number of extensions: 510288
Number of successful extensions: 1237
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: 1218
Number of HSP's gapped (non-prelim): 16
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
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: 53 (25.0 bits)