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= 011714
(479 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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 9/124 (7%)
Query: 133 KNDFFEARKVIDCMFDNG-----YHPNVTTFTI-LVNSLCKSGR---LKEALEVLDQMGR 183
K D EA ++ D NG YH NV + L + +S L ++ QM
Sbjct: 39 KGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV 98
Query: 184 IGCKPNIQTYNCLLKGLCYVGRVEEAYEMLMNVKNDGLKPDVYTYTAVMDGFCKVGRSNE 243
PN T+ + E A++M+ +K G++P + +Y + GFC+ G +++
Sbjct: 99 DKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADK 158
Query: 244 AMEL 247
A E+
Sbjct: 159 AYEV 162
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 39/173 (22%), Positives = 72/173 (41%), Gaps = 26/173 (15%)
Query: 40 AESLDLKENPRSLQAQRFVDRIKASPLKERIDIFDSIKKDGTNWSVSDFNDLLMALVMLN 99
A+ ++++P +L Q+ K + E + ++D +++G S +N +L+ + L
Sbjct: 16 AKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYN-VLLYVCSLA 74
Query: 100 EQETAVKFFSEASSYGLAPNSWTFSIMIRCYCNKNDFFEARKVIDCMFDNGYHPNVTTFT 159
E T + + GL+ F MI KV+ PN TFT
Sbjct: 75 EAAT-----ESSPNPGLSRGFDIFKQMI-----------VDKVV---------PNEATFT 109
Query: 160 ILVNSLCKSGRLKEALEVLDQMGRIGCKPNIQTYNCLLKGLCYVGRVEEAYEM 212
+ A +++ QM G +P +++Y L G C G ++AYE+
Sbjct: 110 NGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 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 = 35.0 bits (79), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 52/124 (41%), Gaps = 9/124 (7%)
Query: 133 KNDFFEARKVIDCMFDNG-----YHPNVTTFTI-LVNSLCKSGR---LKEALEVLDQMGR 183
K D EA ++ D NG YH NV + L + +S L ++ Q
Sbjct: 39 KGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIV 98
Query: 184 IGCKPNIQTYNCLLKGLCYVGRVEEAYEMLMNVKNDGLKPDVYTYTAVMDGFCKVGRSNE 243
PN T+ + E A++ + K G++P + +Y + GFC+ G +++
Sbjct: 99 DKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADK 158
Query: 244 AMEL 247
A E+
Sbjct: 159 AYEV 162
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 189 NIQTYNCLLKGLCYVGRVEEAYEMLMNVKNDGLKPDVYTYTAVMDGFCKVGRSNEAMELL 248
+ YN ++ G G +E +L VK+ GL PD+ +Y A + C +GR ++ +
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ--C-MGRQDQDAGTI 220
Query: 249 NEAIER 254
+E+
Sbjct: 221 ERCLEQ 226
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
pdb|2XR1|B Chain B, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
Length = 640
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 230 AVMDGFCKVGRSNEAMELLNEAIERGVTPNVVTFNTLFNGYCKEGT 275
AV+ F VGRS E M +L E+I +G+ P V + +G E T
Sbjct: 414 AVIPAFA-VGRSQEVMIVLEESIRKGLIPEVPVY---LDGMIWEAT 455
>pdb|1ZCZ|A Chain A, Crystal Structure Of
Phosphoribosylaminoimidazolecarboxamide
Formyltransferase IMP CYCLOHYDROLASE (TM1249) FROM
THERMOTOGA Maritima At 1.88 A Resolution
pdb|1ZCZ|B Chain B, Crystal Structure Of
Phosphoribosylaminoimidazolecarboxamide
Formyltransferase IMP CYCLOHYDROLASE (TM1249) FROM
THERMOTOGA Maritima At 1.88 A Resolution
Length = 464
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 12/108 (11%)
Query: 308 WGKIRPAVSIFKEMVRFGFEVDERMMNSLLRGLCMKSWEEKDLLEDAYQVFEKMTKKVSV 367
W K++PA + E ++ E+D+ L G+ D + A Q E ++
Sbjct: 120 WKKVKPAFDM--ETLKLAIEIDDEETRKYLAGMTFAFTSVYDSIR-ANQFVEGISLAFKR 176
Query: 368 TDPGTYGIVIRTLGKGKKTDE-ALIHLHHAIEMGHIPRTITFNNVIQA 414
D L G+ E A ++ A E+ H +TI+FNN++ A
Sbjct: 177 ED--------LQLRYGENPHEKAFVYGKPAFEILHEGKTISFNNILDA 216
>pdb|2X12|A Chain A, Ph-Induced Modulation Of Streptococcus Parasanguinis
Adhesion By Fap1 Fimbriae
pdb|2X12|B Chain B, Ph-Induced Modulation Of Streptococcus Parasanguinis
Adhesion By Fap1 Fimbriae
Length = 348
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 22/35 (62%)
Query: 239 GRSNEAMELLNEAIERGVTPNVVTFNTLFNGYCKE 273
G ++ +E +++ +GVT + +TF+T F+G +
Sbjct: 248 GNGSKGIEYVSKGTTKGVTKHTITFDTAFSGRAND 282
>pdb|2E7Z|A Chain A, Acetylene Hydratase From Pelobacter Acetylenicus
Length = 727
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 2 SSLVPSNSFIFTNTNRRNHNKIPQFNKL 29
+S SN +F N NHN + QFN L
Sbjct: 156 ASFADSNCLLFIGKNLSNHNWVSQFNDL 183
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 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,970,143
Number of Sequences: 62578
Number of extensions: 561678
Number of successful extensions: 1574
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1560
Number of HSP's gapped (non-prelim): 14
length of query: 479
length of database: 14,973,337
effective HSP length: 103
effective length of query: 376
effective length of database: 8,527,803
effective search space: 3206453928
effective search space used: 3206453928
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)